Multiple platform build/check report for BioC 3.21 - CHECK results for biodbHmdb on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4824
palomino7	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4566
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4604
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4545
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4579
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

CHECK results for biodbHmdb on palomino7

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: 1.14.0

Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbHmdb.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbHmdb_1.14.0.tar.gz

StartedAt: 2025-08-14 23:53:40 -0400 (Thu, 14 Aug 2025)

EndedAt: 2025-08-14 23:59:38 -0400 (Thu, 14 Aug 2025)

EllapsedTime: 358.4 seconds

RetCode: 0

Status: WARNINGS

CheckDir: biodbHmdb.Rcheck

Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbHmdb.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings biodbHmdb_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck'
* using R version 4.5.1 (2025-06-13 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* 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 '1.14.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking 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 'E:/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00install.out' for details.
* used C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
* 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 'E:/biocbuild/bbs-3.21-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
  'E:/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00check.log'
for details.

Installation output

biodbHmdb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################


* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'biodbHmdb' ...
** this is package 'biodbHmdb' version '1.14.0'
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/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:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-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 4.5.1 (2025-06-13 ucrt) -- "Great Square Root"
Copyright (C) 2025 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 [2025-08-14 23:59:09.836][biodb::testContext]
biodb.INFO [2025-08-14 23:59:09.839][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:09.841][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-08-14 23:59:09.842][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:09.843][biodb::testContext]
biodb.INFO [2025-08-14 23:59:09.845][biodb::testThat]
biodb.INFO [2025-08-14 23:59:09.846][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-08-14 23:59:09.847][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:09.848][biodb::testThat]
biodb.INFO [2025-08-14 23:59:10.165][biodb::testContext]
biodb.INFO [2025-08-14 23:59:10.166][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:10.167][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-14 23:59:10.168][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:10.170][biodb::testContext]
biodb.INFO [2025-08-14 23:59:10.180][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-14 23:59:10.182][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-14 23:59:10.190][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:10.191][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-14 23:59:10.193][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-14 23:59:10.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.197][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-14 23:59:10.220][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-14 23:59:10.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.224][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-14 23:59:10.226][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-14 23:59:10.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.231][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-14 23:59:10.232][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-14 23:59:10.234][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-14 23:59:10.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.239][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-14 23:59:10.240][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-14 23:59:10.241][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-14 23:59:10.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.246][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-14 23:59:10.248][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-14 23:59:10.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.251][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[2025-08-14 23:59:10.253][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-14 23:59:10.254][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-14 23:59:10.255][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-14 23:59:10.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.260][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-14 23:59:10.262][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-14 23:59:10.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.268][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-14 23:59:10.270][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-14 23:59:10.272][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-14 23:59:10.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.277][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-14 23:59:10.278][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-14 23:59:10.279][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-14 23:59:10.280][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-14 23:59:10.282][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-14 23:59:10.283][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-14 23:59:10.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.287][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-14 23:59:10.288][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-14 23:59:10.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.293][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-14 23:59:10.294][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-14 23:59:10.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.298][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-14 23:59:10.299][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-14 23:59:10.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.304][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-14 23:59:10.305][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-14 23:59:10.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.309][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-14 23:59:10.311][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-14 23:59:10.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.315][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-14 23:59:10.316][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-14 23:59:10.320][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-14 23:59:10.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.324][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-14 23:59:10.325][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-14 23:59:10.326][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-14 23:59:10.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.333][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-14 23:59:10.360][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.374][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-14 23:59:10.375][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.376][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:10.378][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.379][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.380][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.381][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.383][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-14 23:59:10.384][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:10.385][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.386][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-14 23:59:10.387][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:10.389][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.390][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.391][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:10.391][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-14 23:59:10.391][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-14 23:59:10.391][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-14 23:59:10.391][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-14 23:59:10.392][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:10.393][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.394][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.396][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:10.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.399][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.400][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.401][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:10.403][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:10.404][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.405][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.406][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-14 23:59:10.408][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.409][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-14 23:59:10.416][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.417][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:10.418][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.420][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.422][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.423][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-14 23:59:10.424][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:10.425][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.426][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-14 23:59:10.428][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:10.429][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.430][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.431][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:10.431][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-14 23:59:10.431][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-14 23:59:10.431][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-14 23:59:10.431][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-14 23:59:10.432][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:10.434][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.435][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.436][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:10.437][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.439][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.440][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:10.443][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:10.444][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.445][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.447][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-14 23:59:10.449][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.450][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-14 23:59:10.451][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.452][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:10.453][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.455][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.456][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.457][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.458][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-14 23:59:10.459][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:10.461][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.462][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-14 23:59:10.463][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:10.464][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.465][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.467][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.468][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:10.469][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:10.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.475][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.476][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.477][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:10.478][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:10.479][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.480][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.482][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-14 23:59:10.484][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.485][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-14 23:59:10.486][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.487][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:10.488][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.490][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.491][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.492][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.493][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-14 23:59:10.494][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:10.496][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.497][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-14 23:59:10.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:10.499][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.500][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.501][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.503][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:10.504][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.506][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:10.507][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.508][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.509][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.511][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.512][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:10.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:10.514][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.515][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:10.519][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:10.520][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.586][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.DEBUG[2025-08-14 23:59:10.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.614][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-14 23:59:10.618][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-14 23:59:10.620][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-14 23:59:10.648][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-14 23:59:10.649][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-14 23:59:10.651][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-14 23:59:10.652][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-14 23:59:10.654][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-14 23:59:10.655][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-14 23:59:10.657][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-14 23:59:10.658][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-14 23:59:10.660][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-14 23:59:10.661][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-14 23:59:10.663][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-14 23:59:10.664][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-14 23:59:10.666][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-14 23:59:10.667][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-14 23:59:10.669][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-14 23:59:10.670][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-14 23:59:10.672][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-14 23:59:10.674][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-14 23:59:10.675][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-14 23:59:10.677][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-14 23:59:10.678][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-14 23:59:10.680][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-14 23:59:10.681][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-14 23:59:10.683][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-14 23:59:10.684][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-14 23:59:10.686][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-14 23:59:10.687][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-14 23:59:10.689][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-14 23:59:10.691][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-14 23:59:10.692][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-14 23:59:10.694][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-14 23:59:10.695][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-14 23:59:10.697][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-14 23:59:10.698][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-14 23:59:10.700][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-14 23:59:10.701][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-14 23:59:10.703][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-14 23:59:10.704][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-14 23:59:10.706][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-14 23:59:10.707][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-14 23:59:10.709][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-14 23:59:10.711][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-14 23:59:10.712][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-14 23:59:10.714][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-14 23:59:10.715][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-14 23:59:10.717][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-14 23:59:10.718][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-14 23:59:10.720][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-14 23:59:10.721][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-14 23:59:10.723][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-14 23:59:10.724][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-14 23:59:10.726][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-14 23:59:10.727][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-14 23:59:10.729][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-14 23:59:10.730][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-14 23:59:10.732][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-14 23:59:10.734][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-14 23:59:10.735][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-14 23:59:10.737][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-14 23:59:10.738][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-14 23:59:10.740][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-14 23:59:10.741][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-14 23:59:10.743][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-14 23:59:10.744][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-14 23:59:10.746][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-14 23:59:10.747][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-14 23:59:10.749][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-14 23:59:10.750][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-14 23:59:10.752][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-14 23:59:10.753][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-14 23:59:10.755][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-14 23:59:10.756][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-14 23:59:10.758][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-14 23:59:10.760][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-14 23:59:10.761][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-14 23:59:10.763][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-14 23:59:10.764][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-14 23:59:10.766][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-14 23:59:10.767][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-14 23:59:10.769][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-14 23:59:10.793][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-14 23:59:10.795][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-14 23:59:10.798][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:10.799][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.802][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.900][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[2025-08-14 23:59:10.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:10.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:10.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:10.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:10.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:10.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:10.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:10.947][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-14 23:59:10.963][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:10.965][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.966][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.967][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.969][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:10.970][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.971][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-14 23:59:10.972][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.973][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.974][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-14 23:59:10.976][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:10.977][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.978][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-14 23:59:10.979][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-14 23:59:10.980][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-14 23:59:10.982][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:10.983][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:10.983][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-14 23:59:10.983][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-14 23:59:10.984][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-14 23:59:10.985][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.986][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.987][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:10.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:10.990][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:10.991][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:10.992][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-14 23:59:10.992][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-14 23:59:10.993][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:10.994][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:10.995][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:10.996][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:11.002][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-14 23:59:11.003][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-14 23:59:11.005][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-14 23:59:11.007][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-14 23:59:11.008][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-14 23:59:11.028][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:11.030][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-14 23:59:11.033][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:11.037][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:11.041][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:11.042][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:11.044][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-14 23:59:11.045][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-14 23:59:11.046][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-14 23:59:11.046][self$setPropertyValue] Setting property "urls" to "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-14 23:59:11.047][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:11.048][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:11.049][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-14 23:59:11.050][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-14 23:59:11.052][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:11.073][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:11.074][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:11.076][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:11.077][private$addConnectorRules] Create new rule for URL "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:11.079][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:11.080][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-14 23:59:11.089][biodb::testThat]
biodb.INFO [2025-08-14 23:59:11.090][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-14 23:59:11.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:11.093][biodb::testThat]
biodb.TRACE[2025-08-14 23:59:11.118][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-08-14 23:59:11.120][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-14 23:59:11.123][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-14 23:59:11.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:11.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:11.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:11.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:11.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:11.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:11.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:11.584][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:11.585][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:11.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.588][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:11.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:11.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.604][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:11.606][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:11.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.608][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.630][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:11.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:11.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.638][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.640][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.644][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.646][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.654][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.656][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.662][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.670][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.675][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.685][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.687][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.702][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:11.704][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:11.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.720][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:11.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:11.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.727][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:11.729][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:11.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.733][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.735][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:11.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:11.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.742][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.744][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.750][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.757][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.759][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.765][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.772][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:11.774][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:11.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.776][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:11.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:11.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:11.783][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:11.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.786][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:11.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:11.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.792][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:11.793][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:11.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:11.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:11.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:11.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:11.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:11.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.812][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:11.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:11.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:11.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:11.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.821][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:11.822][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:11.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.826][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:11.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:11.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.831][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:11.832][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:11.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:11.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:11.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.841][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:11.842][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.844][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.846][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:11.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:11.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:11.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:11.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:11.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:11.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:11.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.900][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.905][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:11.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.909][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.914][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.919][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:11.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:11.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:11.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.960][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.965][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:11.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.974][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.979][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:11.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.984][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.988][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.993][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:11.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:11.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:11.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:11.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.002][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:12.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.007][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:12.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.012][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:12.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:12.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:12.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:12.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:12.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:12.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.055][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.064][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.068][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.102][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.107][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.111][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.116][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.121][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.126][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:12.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:12.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.135][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:12.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:12.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.140][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:12.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:12.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.144][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:12.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.163][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:12.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:12.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.200][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.205][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.210][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.215][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.229][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:12.262][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-14 23:59:12.265][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-14 23:59:12.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-14 23:59:12.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.270][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-14 23:59:12.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-14 23:59:12.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.274][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-14 23:59:12.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-14 23:59:12.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.279][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-14 23:59:12.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-14 23:59:12.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.391][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.433][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.437][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.442][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:12.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.486][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.487][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:12.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:12.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.594][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.599][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.604][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.609][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.610][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.612][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.614][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:12.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.645][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.646][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.648][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:12.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.674][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.679][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.684][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.689][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.690][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.692][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.693][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:12.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.724][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:12.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.742][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.747][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.751][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.756][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.757][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.761][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:12.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.780][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.795][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:12.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:12.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.814][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.819][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:12.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.824][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:12.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.828][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:12.830][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.833][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:12.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:12.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.847][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.861][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:12.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:12.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.885][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.890][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.900][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.901][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.903][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.905][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:12.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.933][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.934][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:12.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.956][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.961][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.971][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.972][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.975][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:12.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.992][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:12.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:12.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:12.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:12.997][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:12.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.002][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.007][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.008][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.012][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.027][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.032][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.036][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.041][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.043][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.045][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.046][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.061][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:13.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:13.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.066][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:13.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:13.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.070][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:13.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:13.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:13.076][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:13.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.079][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:13.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:13.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:13.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:13.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:13.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:13.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:13.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:13.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:13.109][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:13.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.111][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:13.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:13.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.457][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.471][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.473][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.475][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.491][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.496][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.500][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.505][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.506][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.508][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.510][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.543][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:13.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:13.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.556][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:13.557][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:13.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.667][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.669][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:13.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.673][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:13.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:13.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.701][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.708][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:13.710][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:13.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.712][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.725][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.727][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:13.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.729][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.800][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.802][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:13.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.812][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:13.814][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:13.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.822][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:13.824][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:13.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.840][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:13.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:13.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.843][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.850][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:13.851][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:13.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.861][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.866][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:13.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.875][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:13.877][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:13.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.879][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.886][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:13.887][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:13.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.889][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.908][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:13.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:13.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.919][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:13.920][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:13.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.922][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.934][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:13.936][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:13.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.938][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:13.945][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:13.946][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:13.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:13.948][ef$get] fields variable is a list.
biodb.INFO [2025-08-14 23:59:13.960][biodb::testThat]
biodb.INFO [2025-08-14 23:59:13.961][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-14 23:59:13.962][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:13.964][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:13.976][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-14 23:59:13.982][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-14 23:59:14.273][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:14.275][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-14 23:59:14.278][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-14 23:59:14.280][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-14 23:59:14.296][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-14 23:59:14.297][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-14 23:59:14.318][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-14 23:59:14.319][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-14 23:59:14.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:14.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:14.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:14.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:14.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:14.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:14.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:14.497][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:14.499][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:14.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:14.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:14.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.513][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.514][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.517][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.518][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.523][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.524][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.528][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.533][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.534][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.538][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.547][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.553][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.554][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.563][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.564][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.567][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.568][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.573][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.574][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.583][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.584][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.586][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.588][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.593][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.594][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.596][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.598][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.603][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:14.604][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:14.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.608][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:14.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:14.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.613][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:14.614][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:14.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.616][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:14.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:14.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.623][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.624][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.626][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.633][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.634][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.643][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.644][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.646][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.653][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:14.654][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:14.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.656][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.658][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:14.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:14.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:14.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:14.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.668][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:14.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:14.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.677][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:14.678][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.680][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.682][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:14.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:14.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:14.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:14.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:14.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:14.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:14.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.701][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.706][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.711][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:14.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.716][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.720][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.725][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:14.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:14.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:14.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.762][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.767][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.772][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:14.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.782][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.787][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:14.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.797][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.802][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:14.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.806][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:14.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:14.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.811][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:14.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:14.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.816][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:14.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:14.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.821][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:14.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:14.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:14.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:14.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:14.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:14.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:14.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:14.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:14.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:14.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:14.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:14.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.870][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.874][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.879][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:14.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:14.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.913][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.918][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.922][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:14.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.927][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.932][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.937][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:14.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.942][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:14.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:14.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:14.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:14.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:14.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:14.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.956][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:14.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.975][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:14.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:14.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:14.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:14.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:14.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:14.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.005][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:15.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:15.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.015][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:15.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:15.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:15.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:15.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.030][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:15.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:15.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:15.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:15.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:15.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:15.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:15.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:15.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:15.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:15.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:15.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:15.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:15.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.081][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-14 23:59:15.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-14 23:59:15.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-14 23:59:15.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-14 23:59:15.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-14 23:59:15.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-14 23:59:15.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-14 23:59:15.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-14 23:59:15.449][biodb::testThat]
biodb.INFO [2025-08-14 23:59:15.451][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-14 23:59:15.452][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:15.453][biodb::testThat]
biodb.TRACE[2025-08-14 23:59:15.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.460][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.462][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-08-14 23:59:15.508][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.518][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.525][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-08-14 23:59:15.527][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-14 23:59:15.528][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-14 23:59:15.529][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-14 23:59:15.531][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:15.533][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:15.535][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:15.536][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:15.537][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:15.539][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:15.540][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:15.542][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:15.543][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:15.544][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-14 23:59:15.546][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-14 23:59:15.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:15.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:15.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.572][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:15.573][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-14 23:59:15.574][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-14 23:59:15.620][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.622][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.624][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.626][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-08-14 23:59:15.644][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.649][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.654][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.661][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[2025-08-14 23:59:15.705][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-14 23:59:15.706][private$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[2025-08-14 23:59:15.708][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-08-14 23:59:15.724][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:15.726][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:15.728][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:15.730][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:15.731][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:15.744][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:15.745][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:15.747][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:15.748][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:15.749][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-14 23:59:15.750][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-14 23:59:15.753][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.757][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.762][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:15.767][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:15.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:15.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.772][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:15.773][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-14 23:59:15.774][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-14 23:59:15.814][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:15.815][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:15.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:15.818][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:15.819][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-08-14 23:59:16.037][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.042][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.047][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:16.054][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-08-14 23:59:16.056][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-08-14 23:59:16.057][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-14 23:59:16.058][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-14 23:59:16.060][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:16.062][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:16.064][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:16.066][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:16.067][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:16.068][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:16.070][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:16.071][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:16.072][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:16.074][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-14 23:59:16.075][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-14 23:59:16.077][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.082][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.087][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.092][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:16.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:16.101][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:16.102][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-14 23:59:16.104][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-08-14 23:59:16.128][biodb::testThat]
biodb.INFO [2025-08-14 23:59:16.129][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-14 23:59:16.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:16.131][biodb::testThat]
biodb.TRACE[2025-08-14 23:59:16.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:16.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:16.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:16.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:16.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:16.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:16.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:16.172][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-14 23:59:16.173][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-14 23:59:16.174][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-14 23:59:16.177][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:16.178][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:16.180][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:16.182][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:16.183][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:16.185][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:16.186][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:16.187][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:16.188][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:16.190][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-14 23:59:16.191][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-14 23:59:16.193][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:16.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:16.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:16.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:16.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:16.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:16.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:16.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:16.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:16.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:16.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:16.213][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:16.214][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-08-14 23:59:17.095][biodb::testThat]
biodb.INFO [2025-08-14 23:59:17.096][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-14 23:59:17.098][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:17.099][biodb::testThat]
biodb.TRACE[2025-08-14 23:59:17.674][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:17.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:17.684][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-14 23:59:17.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-14 23:59:17.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:17.694][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-14 23:59:17.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-14 23:59:17.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:17.732][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:17.737][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-14 23:59:17.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:17.742][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-14 23:59:17.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-14 23:59:17.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:17.747][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-14 23:59:17.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-14 23:59:17.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:17.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-14 23:59:17.834][biodb::testThat]
biodb.INFO [2025-08-14 23:59:17.835][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-14 23:59:17.836][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:17.837][biodb::testThat]
biodb.INFO [2025-08-14 23:59:17.855][biodb::testThat]
biodb.INFO [2025-08-14 23:59:17.857][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-14 23:59:17.858][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:17.859][biodb::testThat]
biodb.INFO [2025-08-14 23:59:17.870][biodb::testThat]
biodb.INFO [2025-08-14 23:59:17.871][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-14 23:59:17.872][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:17.873][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:17.877][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-08-14 23:59:22.459][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-08-14 23:59:22.787][biodb::testThat]
biodb.INFO [2025-08-14 23:59:22.788][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-14 23:59:22.790][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:22.791][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:23.054][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-08-14 23:59:23.452][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:23.453][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:23.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.457][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:23.458][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:23.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.461][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.462][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:23.463][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:23.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.466][ef$get] fields variable is a list.
biodb.INFO [2025-08-14 23:59:23.468][biodb::testThat]
biodb.INFO [2025-08-14 23:59:23.501][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-14 23:59:23.502][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:23.504][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:23.506][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-14 23:59:23.544][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-14 23:59:23.547][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:23.548][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-14 23:59:23.563][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-08-14 23:59:23.565][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-14 23:59:23.566][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-14 23:59:23.567][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-14 23:59:23.569][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:23.571][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-14 23:59:23.572][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-14 23:59:23.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:23.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:23.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:23.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:23.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:23.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:23.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:23.717][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.727][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:23.761][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-14 23:59:23.763][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-14 23:59:23.790][biodb::testThat]
biodb.INFO [2025-08-14 23:59:23.792][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-14 23:59:23.793][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:23.794][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:23.807][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-08-14 23:59:23.809][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-08-14 23:59:23.810][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-14 23:59:23.812][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:23.814][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-14 23:59:23.816][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-08-14 23:59:23.818][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-14 23:59:23.819][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-14 23:59:23.820][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-14 23:59:23.822][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:23.823][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-14 23:59:23.825][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-14 23:59:23.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:23.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:23.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:23.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:23.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:23.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:23.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:23.847][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.851][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:23.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:23.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:23.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:23.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:23.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:23.890][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-14 23:59:23.891][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-14 23:59:23.893][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-08-14 23:59:23.949][biodb::testThat]
biodb.INFO [2025-08-14 23:59:23.950][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-14 23:59:23.951][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:23.953][biodb::testThat]
biodb.INFO [2025-08-14 23:59:23.978][biodb::testThat]
biodb.INFO [2025-08-14 23:59:23.979][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-14 23:59:23.980][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:23.982][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:23.985][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:23.986][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:23.988][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:23.990][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:23.991][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:23.993][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:23.994][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:23.995][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:23.997][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-08-14 23:59:24.009][biodb::testThat]
biodb.INFO [2025-08-14 23:59:24.010][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-14 23:59:24.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:24.013][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:24.016][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:24.017][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:24.019][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:24.021][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:24.022][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:24.024][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:24.025][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:24.026][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:24.027][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-08-14 23:59:24.055][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:24.057][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:24.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.059][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.060][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:24.062][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:24.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.064][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.065][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:24.067][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:24.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.069][ef$get] fields variable is a list.
biodb.INFO [2025-08-14 23:59:24.075][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-14 23:59:24.077][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-14 23:59:24.084][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-14 23:59:24.085][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-14 23:59:24.086][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.089][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.091][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-14 23:59:24.097][biodb::testContext]
biodb.INFO [2025-08-14 23:59:24.098][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:24.099][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-08-14 23:59:24.101][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:24.102][biodb::testContext]
biodb.INFO [2025-08-14 23:59:24.119][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-14 23:59:24.121][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-14 23:59:24.127][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:24.128][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-14 23:59:24.129][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-14 23:59:24.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.134][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-14 23:59:24.135][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-14 23:59:24.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.138][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[2025-08-14 23:59:24.139][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-14 23:59:24.141][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-14 23:59:24.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.145][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-14 23:59:24.146][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-14 23:59:24.147][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-14 23:59:24.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.152][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-14 23:59:24.153][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-14 23:59:24.154][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-14 23:59:24.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.158][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-14 23:59:24.159][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-14 23:59:24.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.163][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[2025-08-14 23:59:24.164][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-14 23:59:24.165][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-14 23:59:24.166][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-14 23:59:24.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.171][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-14 23:59:24.172][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-14 23:59:24.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.176][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-14 23:59:24.177][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-14 23:59:24.179][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-14 23:59:24.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.183][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-14 23:59:24.184][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-14 23:59:24.185][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-14 23:59:24.186][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-14 23:59:24.188][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-14 23:59:24.189][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-14 23:59:24.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.192][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[2025-08-14 23:59:24.193][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-14 23:59:24.195][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-14 23:59:24.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.199][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-14 23:59:24.200][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-14 23:59:24.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.205][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-14 23:59:24.206][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-14 23:59:24.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.210][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-14 23:59:24.211][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-14 23:59:24.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.220][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[2025-08-14 23:59:24.221][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-14 23:59:24.222][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-14 23:59:24.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.227][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-14 23:59:24.228][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-14 23:59:24.231][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-14 23:59:24.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.236][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-14 23:59:24.237][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-14 23:59:24.238][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-14 23:59:24.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.243][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-14 23:59:24.245][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.246][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-14 23:59:24.247][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.249][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:24.250][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.251][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.252][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.253][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.255][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-14 23:59:24.256][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:24.257][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.258][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-14 23:59:24.259][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:24.261][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.262][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.263][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:24.263][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-14 23:59:24.263][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-14 23:59:24.263][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-14 23:59:24.263][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-14 23:59:24.264][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:24.266][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.267][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.268][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:24.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.271][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.272][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.274][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:24.275][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:24.276][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.277][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.278][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-14 23:59:24.280][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.282][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-14 23:59:24.283][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.284][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:24.285][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.286][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.288][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.289][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.290][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-14 23:59:24.291][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:24.292][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.294][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-14 23:59:24.295][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:24.296][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.297][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.298][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:24.298][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-14 23:59:24.298][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-14 23:59:24.298][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-14 23:59:24.298][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-14 23:59:24.300][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:24.301][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.302][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.303][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:24.304][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.305][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.308][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.309][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:24.310][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:24.311][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.312][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.314][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-14 23:59:24.316][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.317][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-14 23:59:24.318][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.319][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:24.321][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.322][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.323][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.324][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.325][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-14 23:59:24.327][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:24.328][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.329][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-14 23:59:24.330][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:24.331][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.333][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.334][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.335][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:24.336][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.337][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.339][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:24.340][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.342][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.343][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.344][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:24.350][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:24.352][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.353][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.355][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-14 23:59:24.357][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.358][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-14 23:59:24.359][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.360][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:24.361][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.363][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.364][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.365][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.366][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-14 23:59:24.368][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:24.369][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.370][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-14 23:59:24.371][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:24.372][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.374][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.375][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.376][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:24.377][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.378][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.380][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:24.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.383][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.384][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.385][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:24.387][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:24.388][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.389][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.390][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:24.391][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.393][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[2025-08-14 23:59:24.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.398][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[2025-08-14 23:59:24.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.410][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[2025-08-14 23:59:24.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.417][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[2025-08-14 23:59:24.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.423][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[2025-08-14 23:59:24.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.429][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[2025-08-14 23:59:24.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.496][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-14 23:59:24.497][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-14 23:59:24.499][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-14 23:59:24.501][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-14 23:59:24.502][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-14 23:59:24.504][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-14 23:59:24.505][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-14 23:59:24.507][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-14 23:59:24.509][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-14 23:59:24.510][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-14 23:59:24.512][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-14 23:59:24.513][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-14 23:59:24.515][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-14 23:59:24.516][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-14 23:59:24.518][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-14 23:59:24.519][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-14 23:59:24.521][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-14 23:59:24.523][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-14 23:59:24.524][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-14 23:59:24.526][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-14 23:59:24.527][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-14 23:59:24.529][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-14 23:59:24.530][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-14 23:59:24.532][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-14 23:59:24.534][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-14 23:59:24.535][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-14 23:59:24.537][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-14 23:59:24.538][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-14 23:59:24.540][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-14 23:59:24.541][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-14 23:59:24.543][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-14 23:59:24.544][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-14 23:59:24.546][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-14 23:59:24.548][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-14 23:59:24.549][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-14 23:59:24.551][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-14 23:59:24.552][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-14 23:59:24.554][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-14 23:59:24.555][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-14 23:59:24.557][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-14 23:59:24.558][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-14 23:59:24.560][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-14 23:59:24.562][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-14 23:59:24.563][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-14 23:59:24.565][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-14 23:59:24.566][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-14 23:59:24.568][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-14 23:59:24.569][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-14 23:59:24.571][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-14 23:59:24.572][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-14 23:59:24.574][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-14 23:59:24.576][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-14 23:59:24.577][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-14 23:59:24.579][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-14 23:59:24.580][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-14 23:59:24.582][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-14 23:59:24.583][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-14 23:59:24.585][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-14 23:59:24.587][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-14 23:59:24.588][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-14 23:59:24.590][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-14 23:59:24.591][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-14 23:59:24.593][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-14 23:59:24.595][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-14 23:59:24.601][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-14 23:59:24.603][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-14 23:59:24.605][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-14 23:59:24.606][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-14 23:59:24.608][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-14 23:59:24.609][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-14 23:59:24.611][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-14 23:59:24.612][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-14 23:59:24.614][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-14 23:59:24.616][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-14 23:59:24.617][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-14 23:59:24.619][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-14 23:59:24.620][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-14 23:59:24.622][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-14 23:59:24.623][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-14 23:59:24.625][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-14 23:59:24.627][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-14 23:59:24.628][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-14 23:59:24.630][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-14 23:59:24.631][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-14 23:59:24.634][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-14 23:59:24.635][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:24.636][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.638][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.639][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[2025-08-14 23:59:24.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.684][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[2025-08-14 23:59:24.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.699][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[2025-08-14 23:59:24.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.735][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[2025-08-14 23:59:24.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:24.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:24.776][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-14 23:59:24.783][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:24.786][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.787][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.788][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.789][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:24.790][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.792][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-14 23:59:24.793][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.794][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.795][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-14 23:59:24.796][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:24.797][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.799][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-14 23:59:24.800][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-14 23:59:24.801][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-14 23:59:24.803][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:24.804][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:24.804][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-14 23:59:24.804][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-14 23:59:24.805][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-14 23:59:24.806][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.807][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.808][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:24.809][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:24.810][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:24.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:24.813][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-14 23:59:24.813][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-14 23:59:24.814][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:24.815][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:24.816][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:24.817][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:24.819][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-14 23:59:24.821][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-14 23:59:24.822][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-14 23:59:24.824][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-14 23:59:24.826][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-14 23:59:24.829][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:24.830][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-14 23:59:24.832][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:24.833][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:24.835][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:24.836][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:24.838][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-14 23:59:24.839][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-14 23:59:24.840][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-14 23:59:24.840][self$setPropertyValue] Setting property "urls" to "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-14 23:59:24.841][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:24.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:24.843][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-14 23:59:24.845][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-14 23:59:24.846][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:24.848][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:24.849][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:24.850][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:24.852][private$addConnectorRules] Create new rule for URL "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:24.858][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:24.860][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-14 23:59:24.862][biodb::testThat]
biodb.INFO [2025-08-14 23:59:24.863][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-08-14 23:59:24.864][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:24.865][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:24.870][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:24.872][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:24.874][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:24.876][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:24.877][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:24.878][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:24.880][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:24.881][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:24.882][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:24.885][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-08-14 23:59:24.900][biodb::testThat]
biodb.INFO [2025-08-14 23:59:24.901][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-08-14 23:59:24.902][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:24.903][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:24.905][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-14 23:59:24.907][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-14 23:59:24.909][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:24.910][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-14 23:59:24.913][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-14 23:59:24.914][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-14 23:59:24.931][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-14 23:59:24.933][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-14 23:59:24.934][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-14 23:59:24.936][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-14 23:59:24.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:24.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:24.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:24.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:24.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:24.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:24.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:24.954][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:24.955][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:24.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.957][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:24.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:24.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.964][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:24.965][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:24.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.967][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.969][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:24.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:24.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.974][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:24.975][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:24.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.979][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:24.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:24.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.983][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:24.985][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:24.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.988][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.989][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:24.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:24.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.994][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:24.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:24.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:24.998][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:24.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.004][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.006][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.008][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.020][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.021][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.023][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.025][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.030][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.031][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.035][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.040][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.041][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.050][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.051][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.054][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.055][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.060][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:25.061][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:25.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.065][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:25.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:25.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.070][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:25.071][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:25.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.073][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:25.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:25.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.080][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.081][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.083][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.090][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.091][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.100][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.109][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:25.111][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:25.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.114][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:25.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:25.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:25.120][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:25.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:25.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:25.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.129][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:25.130][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.134][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:25.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:25.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:25.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.164][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:25.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:25.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.169][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:25.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:25.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.173][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:25.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:25.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.178][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:25.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:25.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.183][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:25.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:25.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:25.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:25.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.217][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:25.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.231][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.240][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:25.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.245][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.255][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:25.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.260][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:25.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:25.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.264][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:25.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:25.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.275][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:25.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:25.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:25.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:25.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:25.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:25.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.290][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:25.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:25.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:25.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:25.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:25.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:25.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:25.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:25.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.323][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.328][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.333][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:25.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:25.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.361][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.366][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.371][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.375][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:25.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.380][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:25.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:25.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.385][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:25.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:25.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.390][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:25.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:25.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.395][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:25.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:25.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:25.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:25.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.410][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:25.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:25.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.415][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:25.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.434][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:25.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:25.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.454][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:25.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:25.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.464][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:25.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:25.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.469][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:25.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:25.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.478][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:25.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:25.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:25.512][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-14 23:59:25.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:25.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:25.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:25.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:25.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-14 23:59:25.541][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-14 23:59:25.542][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-14 23:59:25.544][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-14 23:59:25.545][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-14 23:59:25.546][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:25.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:25.548][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.550][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-14 23:59:25.557][biodb::testContext]
biodb.INFO [2025-08-14 23:59:25.558][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:25.560][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-08-14 23:59:25.561][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-14 23:59:25.562][biodb::testContext]
biodb.INFO [2025-08-14 23:59:25.568][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-14 23:59:25.570][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-14 23:59:25.575][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:25.577][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-14 23:59:25.578][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-14 23:59:25.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.582][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-14 23:59:25.584][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-14 23:59:25.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.588][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-14 23:59:25.589][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-14 23:59:25.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.594][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-14 23:59:25.595][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-14 23:59:25.596][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-14 23:59:25.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.601][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-14 23:59:25.602][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-14 23:59:25.603][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-14 23:59:25.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.607][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-14 23:59:25.609][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-14 23:59:25.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.613][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-14 23:59:25.614][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-14 23:59:25.616][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-14 23:59:25.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.620][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-14 23:59:25.621][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-14 23:59:25.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.626][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-14 23:59:25.627][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-14 23:59:25.628][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-14 23:59:25.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.632][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-14 23:59:25.634][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-14 23:59:25.635][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-14 23:59:25.636][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-14 23:59:25.637][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-14 23:59:25.638][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-14 23:59:25.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.643][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-14 23:59:25.644][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-14 23:59:25.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.648][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-14 23:59:25.650][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-14 23:59:25.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.654][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-14 23:59:25.655][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-14 23:59:25.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.665][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-14 23:59:25.666][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-14 23:59:25.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.671][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-14 23:59:25.672][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-14 23:59:25.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.677][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-14 23:59:25.678][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-14 23:59:25.681][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-14 23:59:25.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.686][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-14 23:59:25.687][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-14 23:59:25.688][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-14 23:59:25.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.693][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-14 23:59:25.695][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.696][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-14 23:59:25.697][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.698][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:25.700][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.701][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.702][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.703][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.704][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-14 23:59:25.706][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:25.707][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.708][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-14 23:59:25.709][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:25.710][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.712][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.713][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:25.713][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-14 23:59:25.713][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-14 23:59:25.713][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-14 23:59:25.713][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-14 23:59:25.714][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:25.715][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.716][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.718][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:25.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.720][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.721][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.722][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.723][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:25.724][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:25.726][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.727][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.728][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-14 23:59:25.730][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.731][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-14 23:59:25.733][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.734][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:25.735][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.736][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.737][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.739][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.740][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-14 23:59:25.741][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:25.742][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.743][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-14 23:59:25.745][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:25.746][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.747][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.748][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:25.748][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-14 23:59:25.748][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-14 23:59:25.748][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-14 23:59:25.748][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-14 23:59:25.749][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:25.751][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.753][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:25.754][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.755][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.756][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.757][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.759][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:25.760][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:25.761][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.762][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.764][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-14 23:59:25.765][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.767][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-14 23:59:25.768][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.769][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:25.770][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.772][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.773][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.774][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.775][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-14 23:59:25.776][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:25.778][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.779][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-14 23:59:25.780][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:25.781][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.782][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.784][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.785][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:25.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:25.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.797][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.798][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.800][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:25.801][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:25.802][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.803][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.805][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-14 23:59:25.807][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.808][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-14 23:59:25.809][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.810][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:25.811][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.813][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.814][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.815][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.816][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-14 23:59:25.818][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:25.819][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.820][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-14 23:59:25.821][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:25.822][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.824][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:25.825][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.826][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-14 23:59:25.827][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.828][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.830][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:25.831][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:25.832][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:25.833][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:25.834][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.835][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:25.836][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:25.838][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:25.839][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:25.840][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:25.841][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:25.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:25.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:25.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:25.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:25.943][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-14 23:59:25.944][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-14 23:59:25.946][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-14 23:59:25.948][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-14 23:59:25.949][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-14 23:59:25.951][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-14 23:59:25.952][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-14 23:59:25.954][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-14 23:59:25.955][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-14 23:59:25.957][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-14 23:59:25.959][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-14 23:59:25.960][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-14 23:59:25.962][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-14 23:59:25.963][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-14 23:59:25.965][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-14 23:59:25.966][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-14 23:59:25.968][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-14 23:59:25.969][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-14 23:59:25.971][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-14 23:59:25.973][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-14 23:59:25.974][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-14 23:59:25.976][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-14 23:59:25.977][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-14 23:59:25.979][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-14 23:59:25.980][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-14 23:59:25.982][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-14 23:59:25.984][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-14 23:59:25.985][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-14 23:59:25.987][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-14 23:59:25.988][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-14 23:59:25.990][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-14 23:59:25.992][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-14 23:59:25.993][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-14 23:59:25.995][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-14 23:59:25.996][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-14 23:59:25.998][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-14 23:59:25.999][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-14 23:59:26.001][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-14 23:59:26.003][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-14 23:59:26.004][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-14 23:59:26.006][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-14 23:59:26.007][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-14 23:59:26.009][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-14 23:59:26.010][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-14 23:59:26.012][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-14 23:59:26.014][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-14 23:59:26.015][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-14 23:59:26.017][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-14 23:59:26.018][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-14 23:59:26.020][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-14 23:59:26.022][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-14 23:59:26.023][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-14 23:59:26.025][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-14 23:59:26.027][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-14 23:59:26.033][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-14 23:59:26.035][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-14 23:59:26.037][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-14 23:59:26.038][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-14 23:59:26.040][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-14 23:59:26.041][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-14 23:59:26.043][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-14 23:59:26.045][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-14 23:59:26.046][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-14 23:59:26.048][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-14 23:59:26.049][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-14 23:59:26.051][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-14 23:59:26.052][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-14 23:59:26.054][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-14 23:59:26.056][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-14 23:59:26.057][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-14 23:59:26.059][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-14 23:59:26.061][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-14 23:59:26.062][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-14 23:59:26.064][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-14 23:59:26.065][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-14 23:59:26.067][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-14 23:59:26.068][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-14 23:59:26.070][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-14 23:59:26.072][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-14 23:59:26.073][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-14 23:59:26.075][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-14 23:59:26.076][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-14 23:59:26.078][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-14 23:59:26.079][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-14 23:59:26.082][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-14 23:59:26.083][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-14 23:59:26.084][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.086][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.126][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[2025-08-14 23:59:26.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.133][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[2025-08-14 23:59:26.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-14 23:59:26.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.226][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-14 23:59:26.227][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:26.229][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:26.231][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-14 23:59:26.232][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:26.233][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-14 23:59:26.234][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:26.236][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-14 23:59:26.237][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:26.238][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-14 23:59:26.239][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-14 23:59:26.240][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-14 23:59:26.242][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:26.243][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-14 23:59:26.244][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-14 23:59:26.245][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-14 23:59:26.247][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-14 23:59:26.248][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-14 23:59:26.248][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-14 23:59:26.248][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-14 23:59:26.249][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-14 23:59:26.250][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:26.251][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:26.252][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-14 23:59:26.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-14 23:59:26.255][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-14 23:59:26.256][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-14 23:59:26.257][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-14 23:59:26.257][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-14 23:59:26.258][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:26.259][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:26.260][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-14 23:59:26.262][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-14 23:59:26.263][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-14 23:59:26.265][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-14 23:59:26.266][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-14 23:59:26.268][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-14 23:59:26.275][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-14 23:59:26.279][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:26.280][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-14 23:59:26.281][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:26.283][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:26.284][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:26.286][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:26.287][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-14 23:59:26.289][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-14 23:59:26.290][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-14 23:59:26.290][self$setPropertyValue] Setting property "urls" to "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-14 23:59:26.291][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-14 23:59:26.292][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-14 23:59:26.293][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-14 23:59:26.294][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-14 23:59:26.296][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-14 23:59:26.298][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:26.299][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:26.300][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:26.302][private$addConnectorRules] Create new rule for URL "E:/biocbuild/bbs-3.21-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-14 23:59:26.303][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-14 23:59:26.304][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-14 23:59:26.306][biodb::testThat]
biodb.INFO [2025-08-14 23:59:26.308][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-08-14 23:59:26.309][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-14 23:59:26.310][biodb::testThat]
biodb.DEBUG[2025-08-14 23:59:26.312][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-14 23:59:26.313][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-14 23:59:26.315][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-14 23:59:26.319][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:26.321][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:26.322][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:26.324][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:26.325][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:26.327][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:26.328][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:26.329][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:26.331][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:26.332][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-14 23:59:26.333][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-08-14 23:59:26.335][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-14 23:59:26.336][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-14 23:59:26.338][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:26.340][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-14 23:59:26.342][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-14 23:59:26.344][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-14 23:59:26.348][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-14 23:59:26.349][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-14 23:59:26.351][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-14 23:59:26.352][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-14 23:59:26.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:26.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:26.383][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.385][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.394][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.395][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.397][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.404][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.405][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.409][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.415][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.416][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.430][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.437][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.439][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.446][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.447][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.456][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.457][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.461][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.466][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.467][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.471][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.476][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.477][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.480][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.481][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.486][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.487][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.491][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.496][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:26.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:26.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.501][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:26.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:26.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.506][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:26.507][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:26.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:26.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:26.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.516][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.517][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.526][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.527][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.529][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.536][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.537][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.539][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.545][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.547][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.550][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.561][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:26.562][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:26.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.567][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:26.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:26.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.572][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:26.573][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.575][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.577][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:26.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.596][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.601][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.606][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:26.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.611][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.615][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.620][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:26.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:26.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:26.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.653][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.663][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:26.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.667][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.672][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:26.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.686][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.692][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.697][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:26.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.702][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.707][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:26.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:26.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.721][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:26.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:26.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.726][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:26.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:26.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:26.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:26.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:26.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:26.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:26.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:26.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.759][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.764][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.768][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:26.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:26.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.801][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.806][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.816][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:26.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.822][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.827][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.831][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:26.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:26.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:26.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:26.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:26.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.846][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:26.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:26.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.850][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:26.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.870][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:26.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:26.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:26.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:26.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.899][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:26.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:26.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.904][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:26.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:26.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.913][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:26.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:26.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:26.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:26.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:26.953][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-14 23:59:26.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.963][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:26.968][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:26.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:26.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:26.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:26.973][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:26.974][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-14 23:59:26.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:26.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:26.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:26.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:26.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:26.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:26.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:26.989][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-14 23:59:26.990][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-14 23:59:26.992][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:26.994][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-14 23:59:26.997][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-14 23:59:26.998][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-14 23:59:27.001][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-14 23:59:27.002][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-14 23:59:27.004][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-14 23:59:27.005][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-14 23:59:27.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:27.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:27.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:27.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:27.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:27.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:27.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:27.023][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.033][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.034][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.038][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.043][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.044][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.046][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.048][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.053][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.054][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.056][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.058][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.078][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.080][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.082][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.094][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.099][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.100][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.103][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.104][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.109][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.110][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.112][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.114][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.119][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.120][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.122][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.129][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:27.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:27.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.132][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.134][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:27.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:27.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.138][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:27.140][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:27.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:27.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:27.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.148][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.149][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.152][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.158][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.159][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.168][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.177][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.179][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.181][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.182][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.187][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:27.189][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:27.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.191][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:27.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:27.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.197][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:27.199][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.206][ef$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-14 23:59:27.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.228][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.237][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-14 23:59:27.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.242][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.247][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.251][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-14 23:59:27.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-14 23:59:27.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-14 23:59:27.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.285][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.290][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.295][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-14 23:59:27.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.300][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.304][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.309][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-14 23:59:27.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.314][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.319][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.324][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-14 23:59:27.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.334][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.339][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.344][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:27.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:27.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.354][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:27.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:27.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-14 23:59:27.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-14 23:59:27.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:27.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:27.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:27.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:27.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-14 23:59:27.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-14 23:59:27.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.378][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.392][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.397][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.401][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-14 23:59:27.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-14 23:59:27.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.427][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.437][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.441][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.446][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-14 23:59:27.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.451][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.461][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.466][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-14 23:59:27.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.472][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:27.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:27.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:27.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.481][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-14 23:59:27.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-14 23:59:27.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.486][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:27.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.505][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-14 23:59:27.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-14 23:59:27.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-14 23:59:27.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-14 23:59:27.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.535][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:27.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:27.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.539][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:27.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:27.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.549][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:27.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-14 23:59:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-14 23:59:27.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-14 23:59:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:27.587][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-14 23:59:27.588][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.594][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.599][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.604][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:27.608][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:27.610][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:27.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:27.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:27.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:27.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:27.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:27.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:27.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:27.652][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-14 23:59:27.654][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-14 23:59:27.655][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-14 23:59:27.658][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:27.659][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:27.661][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:27.663][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:27.664][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:27.666][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:27.667][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:27.668][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:27.670][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:27.671][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-14 23:59:27.672][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-14 23:59:27.674][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.679][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.684][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.689][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.694][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.699][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.704][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:27.708][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:27.710][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-14 23:59:27.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:27.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:27.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:27.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:27.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:27.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:27.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:27.731][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.736][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.741][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.750][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.756][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.762][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.766][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:27.771][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-14 23:59:27.772][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-14 23:59:27.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:27.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:27.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:27.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:27.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:27.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:27.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-14 23:59:27.798][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-14 23:59:27.799][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-14 23:59:27.800][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-14 23:59:27.802][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:27.804][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:27.806][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-14 23:59:27.808][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-14 23:59:27.809][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-14 23:59:27.811][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-14 23:59:27.812][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-14 23:59:27.813][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-14 23:59:27.815][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-14 23:59:27.816][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-14 23:59:27.817][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-14 23:59:27.819][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.824][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.829][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.834][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.839][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.844][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:27.853][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-14 23:59:27.855][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-08-14 23:59:27.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:27.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:27.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:27.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:27.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:27.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:27.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-14 23:59:27.877][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.882][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.887][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.892][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.902][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-14 23:59:27.912][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-14 23:59:27.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-14 23:59:27.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-14 23:59:27.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-14 23:59:27.917][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-14 23:59:27.918][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-14 23:59:27.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-14 23:59:27.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:27.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:27.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:27.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:27.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:27.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-14 23:59:27.944][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-14 23:59:27.946][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-14 23:59:27.947][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-14 23:59:27.948][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-14 23:59:27.950][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-14 23:59:27.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-14 23:59:27.952][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-14 23:59:27.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-14 23:59:27.954][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-14 23:59:27.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
   9.75    0.62   21.40

CHECK results for biodbHmdb on palomino7

Summary

Command output

Installation output

Tests output

Example timings