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This page was generated on 2025-03-10 12:12 -0400 (Mon, 10 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4670
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4355
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4446
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4439
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4306
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 204/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-03-06 13:00 -0500 (Thu, 06 Mar 2025)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_20
git_last_commit: 0eb718c
git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    WARNINGS  

CHECK results for biodbHmdb on taishan

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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: biodbHmdb
Version: 1.12.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz
StartedAt: 2025-03-07 05:43:05 -0000 (Fri, 07 Mar 2025)
EndedAt: 2025-03-07 05:51:54 -0000 (Fri, 07 Mar 2025)
EllapsedTime: 528.5 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: biodbHmdb.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.3 (2025-02-28)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... NOTE
  installed size is  7.3Mb
  sub-directories of 1Mb or more:
    libs   6.7Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... 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 is not available
* 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, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.4.3/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -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() :
      | ^~~~~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c FileEntryMaker.cpp -o FileEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c RcppExports.cpp -o RcppExports.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c TagDetector.cpp -o TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c XmlSplitter.cpp -o XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c extractXmlEntries.cpp -o extractXmlEntries.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c test-100-TagDetector.cpp -o test-100-TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4.3/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.3/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.3/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall  -c test-runner.cpp -o test-runner.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4.3/lib -L/usr/local/lib -o biodbHmdb.so 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 -L/home/biocbuild/R/R-4.4.3/lib -lR
installing to /home/biocbuild/R/R-4.4.3/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.3 (2025-02-28) -- "Trophy Case"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-03-07 05:44:43.580][biodb::testContext]
biodb.INFO [2025-03-07 05:44:43.589][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:44:43.591][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-03-07 05:44:43.593][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:44:43.594][biodb::testContext]
biodb.INFO [2025-03-07 05:44:43.597][biodb::testThat]
biodb.INFO [2025-03-07 05:44:43.598][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-03-07 05:44:43.600][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:44:43.601][biodb::testThat]
biodb.INFO [2025-03-07 05:44:59.751][biodb::testContext]
biodb.INFO [2025-03-07 05:44:59.783][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:44:59.785][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-07 05:44:59.786][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:44:59.788][biodb::testContext]
biodb.INFO [2025-03-07 05:44:59.936][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-07 05:44:59.986][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-07 05:45:00.076][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:45:00.083][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-07 05:45:00.090][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-07 05:45:00.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.107][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-07 05:45:00.227][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-07 05:45:00.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.243][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-07 05:45:00.250][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-07 05:45:00.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.273][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-07 05:45:00.275][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-07 05:45:00.278][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-07 05:45:00.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.289][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-07 05:45:00.291][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-07 05:45:00.297][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-07 05:45:00.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.313][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-07 05:45:00.315][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-07 05:45:00.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.331][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-07 05:45:00.336][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-07 05:45:00.339][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-07 05:45:00.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.354][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-07 05:45:00.361][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-07 05:45:00.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.372][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-07 05:45:00.378][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-07 05:45:00.384][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-07 05:45:00.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.396][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-07 05:45:00.402][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-07 05:45:00.404][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-07 05:45:00.410][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-07 05:45:00.412][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-07 05:45:00.418][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-07 05:45:00.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.434][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-07 05:45:00.441][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-07 05:45:00.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.452][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-07 05:45:00.458][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-07 05:45:00.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.468][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[2025-03-07 05:45:00.474][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-07 05:45:00.476][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-07 05:45:00.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.499][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-07 05:45:00.510][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-07 05:45:00.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.520][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-07 05:45:00.522][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-07 05:45:00.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:00.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:00.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:00.528][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-07 05:45:00.531][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-07 05:45:12.290][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-07 05:45:12.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.310][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-07 05:45:12.312][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-07 05:45:12.318][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-07 05:45:12.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.336][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-07 05:45:12.453][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.504][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-07 05:45:12.510][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.512][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:45:12.518][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.520][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.526][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.527][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.533][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 05:45:12.535][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:45:12.536][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.542][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-07 05:45:12.544][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:45:12.549][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.551][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.557][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:45:12.557][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 05:45:12.557][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 05:45:12.557][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 05:45:12.557][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 05:45:12.558][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:45:12.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.567][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:45:12.573][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.574][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.576][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.582][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.583][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:45:12.589][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:45:12.590][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.592][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.598][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-07 05:45:12.605][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.607][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 05:45:12.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.631][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:45:12.632][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.638][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.639][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.645][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.646][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 05:45:12.648][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:45:12.653][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.655][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-07 05:45:12.656][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:45:12.662][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.663][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.669][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:45:12.669][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 05:45:12.669][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 05:45:12.669][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 05:45:12.669][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 05:45:12.671][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:45:12.672][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.678][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.679][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:45:12.683][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.685][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.686][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.687][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.689][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:45:12.690][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:45:12.692][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.694][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.695][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-07 05:45:12.698][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.699][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-07 05:45:12.700][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:45:12.704][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.705][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.707][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.708][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.709][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 05:45:12.711][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:45:12.712][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.714][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-07 05:45:12.715][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:45:12.717][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.719][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.720][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.722][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:45:12.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.724][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.726][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:45:12.728][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.729][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.730][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.732][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.733][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:45:12.734][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:45:12.736][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.737][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.739][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-07 05:45:12.742][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.743][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 05:45:12.744][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.746][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:45:12.748][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.750][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.752][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.754][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.755][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 05:45:12.756][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:45:12.758][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.759][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-07 05:45:12.761][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:45:12.762][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.764][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:12.766][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.774][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:45:12.776][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.777][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.778][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:45:12.780][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:12.781][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:12.783][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:45:12.784][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.785][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:45:12.787][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:45:12.788][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:12.790][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:12.795][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:45:12.796][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.859][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[2025-03-07 05:45:12.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.932][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.DEBUG[2025-03-07 05:45:12.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:12.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:12.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:12.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:12.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:12.948][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-07 05:45:12.955][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-07 05:45:12.958][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-07 05:45:12.960][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-07 05:45:12.962][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-07 05:45:12.982][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 05:45:12.984][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-07 05:45:12.986][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-07 05:45:12.988][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-07 05:45:12.990][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 05:45:12.992][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 05:45:12.995][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-07 05:45:12.997][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-07 05:45:12.999][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-07 05:45:13.001][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-07 05:45:13.003][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 05:45:13.009][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-07 05:45:13.011][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-07 05:45:13.015][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-07 05:45:13.018][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-07 05:45:13.020][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-07 05:45:13.022][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-07 05:45:13.025][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-07 05:45:13.027][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-07 05:45:13.029][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-07 05:45:13.031][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-07 05:45:13.033][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-07 05:45:13.035][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-07 05:45:13.038][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-07 05:45:13.040][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-07 05:45:13.042][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-07 05:45:13.044][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-07 05:45:13.047][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-07 05:45:13.049][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-07 05:45:13.052][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-07 05:45:13.055][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-07 05:45:13.057][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-07 05:45:13.060][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-07 05:45:13.063][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-07 05:45:13.066][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-07 05:45:13.068][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-07 05:45:13.071][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-07 05:45:13.075][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-07 05:45:13.077][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-07 05:45:13.080][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-07 05:45:13.082][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-07 05:45:13.085][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-07 05:45:13.087][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-07 05:45:13.090][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-07 05:45:13.092][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-07 05:45:13.095][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-07 05:45:13.097][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-07 05:45:13.099][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-07 05:45:13.102][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-07 05:45:13.104][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-07 05:45:13.106][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-07 05:45:13.109][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-07 05:45:13.111][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-07 05:45:13.113][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-07 05:45:13.116][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-07 05:45:13.118][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-07 05:45:13.120][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-07 05:45:13.122][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-07 05:45:13.124][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-07 05:45:13.126][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-07 05:45:13.129][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-07 05:45:13.131][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-07 05:45:13.133][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-07 05:45:13.135][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-07 05:45:13.137][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-07 05:45:13.140][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-07 05:45:13.142][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-07 05:45:13.144][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-07 05:45:13.146][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-07 05:45:13.148][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-07 05:45:13.151][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-07 05:45:13.153][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-07 05:45:13.155][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-07 05:45:13.158][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-07 05:45:13.160][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-07 05:45:13.162][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-07 05:45:13.164][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-07 05:45:13.166][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-07 05:45:13.176][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-07 05:45:13.201][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-07 05:45:13.206][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:45:13.207][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.214][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:45:13.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:13.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:13.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:13.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:13.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:13.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:45:13.966][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-07 05:45:15.197][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:45:16.366][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:21.864][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-07 05:45:24.144][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:24.150][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:45:24.152][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:24.154][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-07 05:45:24.156][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:24.161][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:45:24.162][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-07 05:45:24.164][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:45:24.166][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:24.168][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-07 05:45:24.187][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-07 05:45:24.193][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-07 05:45:24.195][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-07 05:45:24.201][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:45:24.201][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-07 05:45:24.201][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-07 05:45:24.203][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-07 05:45:24.217][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:24.219][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:24.229][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:45:24.231][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:45:24.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:45:24.242][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:45:24.244][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 05:45:24.244][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-07 05:45:24.255][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:45:24.256][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:45:24.266][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-07 05:45:24.276][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:45:24.313][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-07 05:45:24.325][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 05:45:24.328][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 05:45:24.351][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 05:45:24.362][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 05:45:24.470][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:45:24.472][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-07 05:45:24.488][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:45:24.503][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:45:24.519][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:45:24.525][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:45:24.528][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-07 05:45:24.534][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-07 05:45:24.536][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 05:45:24.536][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-07 05:45:24.542][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:45:24.544][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:45:24.550][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-07 05:45:24.552][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-07 05:45:24.558][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:45:24.663][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:45:24.669][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:45:24.671][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:45:24.678][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:45:24.680][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:45:24.686][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-07 05:45:24.739][biodb::testThat]
biodb.INFO [2025-03-07 05:45:24.749][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-03-07 05:45:24.751][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:45:24.752][biodb::testThat]
biodb.TRACE[2025-03-07 05:45:24.802][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-03-07 05:45:24.809][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 05:45:24.819][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 05:45:24.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:45:24.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:24.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:24.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:24.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:24.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:24.936][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.TRACE[2025-03-07 05:45:25.028][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:25.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:25.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.040][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:25.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:25.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.098][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:25.100][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:25.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.203][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:25.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:25.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.218][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:25.220][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:25.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.233][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:25.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:25.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.248][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:25.250][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:25.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.258][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.260][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:25.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:25.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.275][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:25.276][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:25.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.283][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:25.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:25.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.355][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:25.356][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:25.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.359][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:25.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.376][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:25.382][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:25.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:25.389][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:25.425][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:36.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:36.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:36.863][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:36.865][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:36.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.889][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:36.934][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:36.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:36.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:36.940][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:36.941][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:36.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.944][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:36.946][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:36.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:36.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:36.952][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:36.958][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:36.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.965][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:36.967][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:36.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:36.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:36.986][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:36.988][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:36.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:36.995][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.064][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:37.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.070][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:37.072][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:37.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.079][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:37.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:37.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.096][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:37.102][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:37.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.109][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:37.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.131][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:37.141][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:37.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.144][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:37.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:37.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.170][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:37.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:37.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.186][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:37.187][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:37.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.195][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.201][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:37.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:37.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:37.212][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:37.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.215][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.217][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:37.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:37.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.223][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:45:37.224][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:37.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.229][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:45:37.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:37.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:37.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:37.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:37.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:37.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:37.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:37.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:37.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.256][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:40.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:40.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.269][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.276][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:40.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.291][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:40.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:40.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:40.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.310][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:40.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:40.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:40.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:40.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:40.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:40.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:40.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:40.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:40.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:40.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:40.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:40.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:40.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:40.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.366][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:40.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:40.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.372][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:40.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:40.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.379][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:40.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:40.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:40.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:40.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:40.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:40.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.397][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:40.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:40.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:40.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:40.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:40.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:40.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.415][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:40.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:40.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.422][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:40.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:40.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.428][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:40.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:40.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.434][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:40.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:40.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:40.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:40.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:40.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:40.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:40.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.459][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:40.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:40.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:40.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:40.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:40.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.489][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.495][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:40.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.500][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:40.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:40.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:40.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:40.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:40.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:40.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:40.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:40.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:40.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:40.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.545][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.550][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:40.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:40.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.555][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:40.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:40.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:40.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.566][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:40.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:40.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.572][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:40.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:40.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.577][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:40.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:40.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:40.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:40.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.588][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:40.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:40.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.594][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:40.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.599][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:45:40.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.621][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:45:40.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:40.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:40.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:40.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.733][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:40.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:40.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.743][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:40.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:40.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:40.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:40.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.767][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:40.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:40.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:40.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:40.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:40.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:40.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:40.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:40.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:40.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:40.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:40.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:40.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:45:40.820][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-07 05:45:40.835][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 05:45:40.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 05:45:40.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.840][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 05:45:40.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 05:45:40.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.846][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-07 05:45:40.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-07 05:45:40.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:40.851][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-07 05:45:40.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-07 05:45:40.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:40.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.318][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.448][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.462][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:45:42.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.607][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.615][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:42.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:42.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.633][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.639][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.652][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.658][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.659][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.662][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.663][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:42.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.696][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.698][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.700][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:42.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.726][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.731][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.737][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.739][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.741][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.743][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:42.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:42.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.797][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.803][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.809][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.814][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.816][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.818][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.822][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:42.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:42.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:42.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.844][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:42.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:42.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.862][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:42.863][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:42.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.866][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:42.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:42.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.883][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:42.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:42.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.889][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:42.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:42.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.894][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:42.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:42.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.900][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:42.901][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:42.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.904][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.906][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:42.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.922][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:42.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:42.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.927][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:42.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:42.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:42.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:42.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.939][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:42.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:42.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.943][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:42.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:42.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.960][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.966][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.971][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.977][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.979][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.982][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.983][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:42.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:42.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:42.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.018][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.020][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.038][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.043][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.049][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.062][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.063][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.066][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.067][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.084][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.089][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.095][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.101][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.102][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.105][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.106][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.123][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.129][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.135][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.140][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.142][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.145][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.146][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:43.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:43.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.169][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:43.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:43.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.175][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:43.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:43.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.180][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:43.182][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:43.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.185][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:43.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:43.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:43.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:43.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:43.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:43.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:43.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:43.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.221][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:43.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:43.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.226][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:43.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:43.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.261][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.263][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.290][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.296][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.302][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.307][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.309][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.311][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.313][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.330][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:43.331][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:43.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.334][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.341][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:43.342][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:43.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.345][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.352][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.354][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:43.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.357][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.363][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:43.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:43.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.368][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.375][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:43.376][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:43.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.379][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.386][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.388][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:43.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.391][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.397][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.399][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:43.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.402][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.409][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.411][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:43.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.413][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.420][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:43.422][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:43.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.425][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.431][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:43.433][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:43.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.436][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.443][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:43.449][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:43.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.452][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.467][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.473][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:43.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.480][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.492][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:43.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:43.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.504][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.515][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.521][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:43.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.524][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.555][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:43.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:43.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.564][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.579][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:43.585][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:43.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.602][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:43.604][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:43.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.611][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:43.626][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:43.628][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:43.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:43.635][ef$get] fields variable is a list.
biodb.INFO [2025-03-07 05:45:43.658][biodb::testThat]
biodb.INFO [2025-03-07 05:45:43.660][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-07 05:45:43.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:45:43.667][biodb::testThat]
biodb.DEBUG[2025-03-07 05:45:43.753][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-07 05:45:43.771][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 05:45:46.359][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:45:46.378][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 05:45:46.383][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 05:45:46.388][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 05:45:46.399][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-07 05:45:46.400][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 05:45:46.442][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 05:45:46.444][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 05:45:46.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:45:46.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:45:46.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:45:46.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:45:46.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:45:46.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:45:46.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:45:46.492][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:46.494][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:46.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.497][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:46.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:46.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.505][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:46.507][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:46.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.510][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.512][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:46.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:45:46.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.519][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.533][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.536][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.543][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.563][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.569][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.596][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.600][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.612][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.622][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:46.624][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:46.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.627][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:46.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:46.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.635][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:46.637][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:46.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.640][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.642][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:46.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.648][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:46.650][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:46.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.653][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.655][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:46.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:45:46.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.662][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:46.664][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:46.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.667][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:46.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:46.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.675][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:46.677][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:46.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.680][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.683][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:46.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:46.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.689][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:46.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:46.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.694][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:46.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.703][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:46.704][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:46.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.708][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:46.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:46.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.716][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:46.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:46.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.721][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:46.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:46.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.729][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:46.731][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:46.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.734][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:46.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:45:46.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.743][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:46.745][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:46.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.748][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:45:46.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:45:46.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.757][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:46.758][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:46.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.761][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.764][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:46.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.770][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:46.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:46.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.775][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:45:46.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:45:46.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.784][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:45:46.786][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:46.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.789][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.792][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:45:46.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:46.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:46.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:46.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:46.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:46.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:45:46.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:45:46.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.833][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.857][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.863][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:45:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.870][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.876][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.888][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:45:46.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:46.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:46.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:45:46.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:56.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:56.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:56.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:56.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:56.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:45:56.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.186][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:56.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:56.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:56.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:56.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:56.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:45:56.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:56.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:56.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.235][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:56.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:56.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:56.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:45:56.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.270][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:56.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:56.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.278][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:56.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:56.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.285][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:56.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:45:56.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.292][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:56.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:56.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.299][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:56.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:56.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.305][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:45:56.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:45:56.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:56.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:56.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:56.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:56.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.325][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:45:56.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:45:56.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:56.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:56.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:56.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:56.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:45:56.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:45:56.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:56.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:56.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:56.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:56.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:45:56.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:45:56.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.375][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:56.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:56.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:56.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:56.381][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:57.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:57.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:45:57.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:45:57.903][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:57.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:45:59.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:46:00.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:46:00.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:46:00.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:46:00.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:46:00.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:46:00.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.471][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.485][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:46:00.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:46:00.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.491][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:46:00.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:46:00.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.498][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:46:00.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:46:00.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.506][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:00.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:00.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.514][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:00.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:00.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.521][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:00.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:00.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.527][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:46:00.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:46:00.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.534][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:46:00.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:46:00.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.540][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:46:00.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:46:00.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.547][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:46:00.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.574][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:46:00.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:46:00.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.708][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.716][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:00.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:00.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.724][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:00.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:00.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:00.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.739][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:00.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:00.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:00.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:00.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:00.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:00.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:00.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:00.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:00.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:00.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:00.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:00.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:00.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:00.797][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-07 05:46:00.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-07 05:46:00.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-07 05:46:00.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-07 05:46:00.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-07 05:46:00.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:00.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-07 05:46:00.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-07 05:46:00.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-07 05:46:00.884][biodb::testThat]
biodb.INFO [2025-03-07 05:46:00.886][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-07 05:46:00.887][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:00.889][biodb::testThat]
biodb.TRACE[2025-03-07 05:46:00.908][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:00.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:00.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:00.913][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:00.980][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-03-07 05:46:01.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:02.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:02.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:02.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:02.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:02.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:02.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.187][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-03-07 05:46:02.189][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-07 05:46:02.192][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 05:46:02.193][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 05:46:02.241][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.243][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.249][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:46:02.252][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.257][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:46:02.259][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:46:02.265][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:46:02.267][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:46:02.272][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:46:02.274][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 05:46:02.275][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 05:46:02.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:02.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:02.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:02.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:02.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:02.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:02.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.321][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:02.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:02.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.332][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:46:02.338][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 05:46:02.339][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 05:46:02.372][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.374][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.384][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.406][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-03-07 05:46:02.424][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.429][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.435][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.447][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[2025-03-07 05:46:02.565][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 05:46:02.577][private$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[2025-03-07 05:46:02.579][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-03-07 05:46:02.605][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.608][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.610][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:46:02.612][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.614][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:46:02.645][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:46:02.647][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:46:02.648][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:46:02.650][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:46:02.651][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 05:46:02.653][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 05:46:02.658][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.665][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.671][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.677][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:02.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:02.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.683][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:46:02.684][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 05:46:02.685][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 05:46:02.703][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.704][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.708][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.717][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-03-07 05:46:02.740][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.747][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.754][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.765][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-03-07 05:46:02.767][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-03-07 05:46:02.769][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-07 05:46:02.771][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-07 05:46:02.781][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.783][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.788][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:46:02.790][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:02.792][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:46:02.794][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:46:02.796][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:46:02.797][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:46:02.799][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:46:02.801][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 05:46:02.803][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 05:46:02.805][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.812][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.819][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:02.826][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:02.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:02.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:02.833][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:46:02.834][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 05:46:02.836][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-03-07 05:46:02.875][biodb::testThat]
biodb.INFO [2025-03-07 05:46:02.877][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-03-07 05:46:02.878][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:02.880][biodb::testThat]
biodb.TRACE[2025-03-07 05:46:10.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:10.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:10.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:10.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:10.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:10.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:10.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:10.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:10.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:10.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:10.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:10.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:12.913][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-07 05:46:12.920][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 05:46:12.922][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 05:46:12.951][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:12.954][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:12.956][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:46:12.959][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:12.960][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:46:12.963][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:46:12.964][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:46:12.966][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:46:12.967][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:46:12.969][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 05:46:12.971][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 05:46:12.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:12.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:12.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:12.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:12.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:12.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:12.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:12.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:12.987][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:12.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:12.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:12.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:12.994][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:12.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:12.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:12.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:13.000][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:46:13.002][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-03-07 05:46:13.072][biodb::testThat]
biodb.INFO [2025-03-07 05:46:13.083][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-03-07 05:46:13.085][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:13.086][biodb::testThat]
biodb.TRACE[2025-03-07 05:46:13.129][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:14.153][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:14.161][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-07 05:46:14.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-07 05:46:14.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:14.167][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-07 05:46:14.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-07 05:46:14.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:14.259][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:14.264][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 05:46:14.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:14.270][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-07 05:46:14.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-07 05:46:14.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:14.276][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-07 05:46:14.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-07 05:46:14.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:14.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-07 05:46:14.300][biodb::testThat]
biodb.INFO [2025-03-07 05:46:14.301][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-07 05:46:14.303][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:14.304][biodb::testThat]
biodb.INFO [2025-03-07 05:46:14.328][biodb::testThat]
biodb.INFO [2025-03-07 05:46:14.330][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-07 05:46:14.331][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:14.332][biodb::testThat]
biodb.INFO [2025-03-07 05:46:14.343][biodb::testThat]
biodb.INFO [2025-03-07 05:46:14.344][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-07 05:46:14.346][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:14.347][biodb::testThat]
biodb.DEBUG[2025-03-07 05:46:14.351][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-03-07 05:46:23.140][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-03-07 05:46:26.242][biodb::testThat]
biodb.INFO [2025-03-07 05:46:26.262][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-07 05:46:26.264][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:26.265][biodb::testThat]
biodb.DEBUG[2025-03-07 05:46:40.253][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-03-07 05:46:40.898][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:40.904][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:40.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:40.908][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:40.914][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:40.920][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:40.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:40.924][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:40.930][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:40.932][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:40.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:40.939][ef$get] fields variable is a list.
biodb.INFO [2025-03-07 05:46:40.946][biodb::testThat]
biodb.INFO [2025-03-07 05:46:40.948][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-03-07 05:46:40.954][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:40.955][biodb::testThat]
biodb.DEBUG[2025-03-07 05:46:40.966][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-07 05:46:44.070][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 05:46:44.107][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.110][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 05:46:44.154][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-07 05:46:44.156][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-07 05:46:44.158][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-07 05:46:44.160][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 05:46:44.163][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.167][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 05:46:44.169][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 05:46:44.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:46:44.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:46:44.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:46:44.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:46:44.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:46:44.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:46:44.221][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:44.336][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-07 05:46:44.337][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-07 05:46:44.364][biodb::testThat]
biodb.INFO [2025-03-07 05:46:44.366][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-07 05:46:44.368][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:44.370][biodb::testThat]
biodb.DEBUG[2025-03-07 05:46:44.388][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-03-07 05:46:44.391][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-03-07 05:46:44.393][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 05:46:44.395][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.397][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 05:46:44.400][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-03-07 05:46:44.402][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-07 05:46:44.403][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-07 05:46:44.405][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 05:46:44.407][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.408][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 05:46:44.410][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 05:46:44.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:46:44.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:46:44.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:46:44.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:46:44.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:46:44.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:46:44.429][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.435][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:46:44.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:46:44.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:46:44.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:46:44.479][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-07 05:46:44.481][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-07 05:46:44.482][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-03-07 05:46:44.508][biodb::testThat]
biodb.INFO [2025-03-07 05:46:44.510][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-03-07 05:46:44.511][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:44.513][biodb::testThat]
biodb.INFO [2025-03-07 05:46:44.543][biodb::testThat]
biodb.INFO [2025-03-07 05:46:44.544][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-03-07 05:46:44.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:44.547][biodb::testThat]
biodb.DEBUG[2025-03-07 05:46:44.551][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.553][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.556][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:46:44.558][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.559][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:46:44.561][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:46:44.563][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:46:44.565][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:46:44.566][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-03-07 05:46:44.577][biodb::testThat]
biodb.INFO [2025-03-07 05:46:44.578][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-03-07 05:46:44.580][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:46:44.581][biodb::testThat]
biodb.DEBUG[2025-03-07 05:46:44.585][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.587][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.589][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:46:44.591][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:46:44.592][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:46:44.595][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:46:44.596][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:46:44.598][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:46:44.599][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-03-07 05:46:44.612][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:46:44.614][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:46:44.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.617][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.618][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:46:44.620][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:46:44.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.623][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:46:44.624][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:44.626][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:46:44.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:46:44.629][ef$get] fields variable is a list.
biodb.INFO [2025-03-07 05:46:44.631][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-07 05:46:44.633][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-07 05:46:44.645][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-07 05:46:44.646][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-07 05:46:44.647][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:46:44.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:46:44.650][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:46:44.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:46:44.653][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-07 05:46:44.678][biodb::testContext]
biodb.INFO [2025-03-07 05:46:44.680][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:46:44.686][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-03-07 05:46:44.687][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:46:44.693][biodb::testContext]
biodb.INFO [2025-03-07 05:46:44.773][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-07 05:46:44.776][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-07 05:46:44.805][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:46:44.807][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-07 05:46:44.813][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-07 05:46:44.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.824][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-07 05:46:44.831][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-07 05:46:44.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.846][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-07 05:46:44.853][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-07 05:46:44.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.869][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-07 05:46:44.871][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-07 05:46:44.877][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-07 05:46:44.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.886][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[2025-03-07 05:46:44.888][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-07 05:46:44.894][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-07 05:46:44.896][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-07 05:46:44.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.911][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-07 05:46:44.917][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-07 05:46:44.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.927][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-07 05:46:44.933][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-07 05:46:44.935][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-07 05:46:44.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.949][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-07 05:46:44.951][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-07 05:46:44.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.966][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-07 05:46:44.967][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-07 05:46:44.973][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-07 05:46:44.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:44.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:44.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:44.984][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-07 05:46:44.990][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-07 05:46:44.991][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-07 05:46:44.997][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-07 05:46:44.999][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-07 05:46:45.005][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-07 05:46:45.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:45.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:45.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:45.015][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-07 05:46:45.021][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-07 05:46:45.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:45.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:45.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:45.032][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-07 05:46:45.038][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-07 05:46:45.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:45.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:45.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:45.053][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-07 05:46:45.055][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-07 05:46:45.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:45.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:45.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:45.070][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-07 05:46:45.071][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-07 05:46:45.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:45.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:45.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:45.102][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-07 05:46:45.104][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-07 05:46:45.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:46:45.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:46:45.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:46:45.119][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-07 05:46:45.125][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-07 05:48:55.275][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-07 05:48:55.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:55.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:55.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:55.352][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-07 05:48:55.362][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-07 05:48:55.363][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-07 05:48:55.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:55.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:55.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:55.440][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-07 05:48:55.512][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:55.514][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-07 05:48:55.516][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:55.518][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:48:55.519][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:55.521][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:48:55.522][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:55.524][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:48:55.525][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 05:48:55.527][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:48:55.528][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:55.530][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-07 05:48:55.531][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:48:55.533][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:55.534][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:55.536][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:48:55.536][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 05:48:55.536][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 05:48:55.536][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 05:48:55.536][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 05:48:55.542][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:48:55.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:55.546][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:55.547][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:48:55.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:55.550][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:55.551][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:48:55.553][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:55.554][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:48:55.555][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:48:55.557][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:55.558][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:55.782][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-07 05:48:56.392][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.394][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 05:48:56.395][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.397][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:48:56.399][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.400][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.402][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.403][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.405][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 05:48:56.406][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:48:56.408][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.409][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-07 05:48:56.411][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:48:56.412][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.414][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.416][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:48:56.416][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 05:48:56.416][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 05:48:56.416][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 05:48:56.416][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 05:48:56.440][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:48:56.449][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:56.450][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:56.452][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:48:56.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:56.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:56.473][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.475][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.484][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:48:56.486][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:48:56.488][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.497][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.499][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-07 05:48:56.510][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.512][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-07 05:48:56.522][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.524][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:48:56.534][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.542][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.544][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.553][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 05:48:56.555][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:48:56.561][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.562][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-07 05:48:56.564][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:48:56.569][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.571][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.573][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.575][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:48:56.576][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:56.578][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:56.579][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:48:56.580][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:56.583][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:56.585][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.586][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.588][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:48:56.589][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:48:56.591][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.593][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.595][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-07 05:48:56.604][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.607][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 05:48:56.609][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.610][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:48:56.612][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.614][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.615][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.617][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.618][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 05:48:56.620][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:48:56.621][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.623][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-07 05:48:56.624][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:48:56.626][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.646][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:48:56.657][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.660][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:48:56.670][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:56.671][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:56.673][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:48:56.674][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:48:56.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:48:56.677][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:48:56.678][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.680][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:48:56.684][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:48:56.686][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:48:56.688][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:48:56.690][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:48:56.691][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.692][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[2025-03-07 05:48:56.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.699][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[2025-03-07 05:48:56.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.727][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[2025-03-07 05:48:56.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:48:56.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:48:56.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:48:56.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:48:56.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:48:56.813][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-07 05:48:57.590][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-07 05:49:06.153][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-07 05:49:06.157][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-07 05:49:06.161][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-07 05:49:06.165][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 05:49:06.168][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-07 05:49:06.226][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-07 05:49:06.231][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-07 05:49:06.235][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 05:49:06.238][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 05:49:06.240][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-07 05:49:06.243][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-07 05:49:06.245][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-07 05:49:06.247][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-07 05:49:06.249][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 05:49:06.252][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-07 05:49:06.254][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-07 05:49:06.257][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-07 05:49:06.260][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-07 05:49:06.262][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-07 05:49:06.264][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-07 05:49:06.267][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-07 05:49:06.269][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-07 05:49:06.272][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-07 05:49:06.274][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-07 05:49:06.277][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-07 05:49:06.279][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-07 05:49:06.281][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-07 05:49:06.284][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-07 05:49:06.286][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-07 05:49:06.288][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-07 05:49:06.291][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-07 05:49:06.293][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-07 05:49:06.295][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-07 05:49:06.298][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-07 05:49:06.300][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-07 05:49:06.303][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-07 05:49:06.305][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-07 05:49:06.308][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-07 05:49:06.311][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-07 05:49:06.314][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-07 05:49:06.316][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-07 05:49:06.319][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-07 05:49:06.322][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-07 05:49:06.324][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-07 05:49:06.327][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-07 05:49:06.330][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-07 05:49:06.339][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-07 05:49:06.344][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-07 05:49:06.347][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-07 05:49:06.349][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-07 05:49:06.360][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-07 05:49:06.362][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-07 05:49:06.365][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-07 05:49:06.368][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-07 05:49:06.371][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-07 05:49:06.373][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-07 05:49:06.376][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-07 05:49:06.392][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-07 05:49:06.394][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-07 05:49:06.397][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-07 05:49:06.400][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-07 05:49:06.402][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-07 05:49:06.405][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-07 05:49:06.407][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-07 05:49:06.410][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-07 05:49:06.413][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-07 05:49:06.416][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-07 05:49:06.418][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-07 05:49:06.421][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-07 05:49:06.423][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-07 05:49:06.426][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-07 05:49:06.429][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-07 05:49:06.432][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-07 05:49:06.435][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-07 05:49:06.437][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-07 05:49:06.440][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-07 05:49:06.443][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-07 05:49:06.473][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-07 05:49:06.476][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-07 05:49:06.479][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-07 05:49:06.482][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-07 05:49:06.484][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-07 05:49:06.487][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-07 05:49:06.489][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:49:06.490][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.493][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.494][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[2025-03-07 05:49:06.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.543][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[2025-03-07 05:49:06.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:49:06.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:06.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:06.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:06.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:06.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:06.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:49:06.749][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-07 05:49:06.757][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:49:06.760][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:49:06.762][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-07 05:49:06.764][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:49:06.766][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:49:06.768][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-07 05:49:06.769][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-07 05:49:06.770][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-07 05:49:06.772][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:49:06.773][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-07 05:49:06.775][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:49:06.778][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:49:06.779][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-07 05:49:06.780][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-07 05:49:06.782][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-07 05:49:06.784][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-07 05:49:06.786][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:49:06.786][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-07 05:49:06.786][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-07 05:49:06.787][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-07 05:49:06.789][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:49:06.791][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:49:06.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:49:06.795][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:49:06.797][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:49:06.798][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:49:06.801][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 05:49:06.801][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-07 05:49:06.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:49:06.803][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:49:06.805][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-07 05:49:06.806][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:49:06.813][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-07 05:49:06.822][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 05:49:06.842][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 05:49:06.853][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 05:49:06.856][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 05:49:06.873][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:49:06.875][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-07 05:49:06.877][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:49:06.880][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:49:06.882][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:49:06.883][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:49:06.886][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-07 05:49:06.887][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-07 05:49:06.889][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 05:49:06.889][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-07 05:49:06.890][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:49:06.892][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:49:06.893][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-07 05:49:06.894][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-07 05:49:06.896][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:49:06.899][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:49:06.902][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:49:06.903][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:49:06.906][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:49:06.907][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:49:06.909][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-07 05:49:06.915][biodb::testThat]
biodb.INFO [2025-03-07 05:49:06.917][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-03-07 05:49:06.918][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:49:06.920][biodb::testThat]
biodb.DEBUG[2025-03-07 05:49:07.171][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:49:07.287][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:49:07.300][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:49:07.304][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:49:07.306][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:49:07.309][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:49:07.313][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:49:07.315][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:49:07.317][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:49:07.344][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-07 05:49:07.432][biodb::testThat]
biodb.INFO [2025-03-07 05:49:07.434][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-03-07 05:49:07.436][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:49:07.437][biodb::testThat]
biodb.DEBUG[2025-03-07 05:49:07.445][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-07 05:49:07.447][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 05:49:07.458][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:49:07.461][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 05:49:07.466][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-07 05:49:07.468][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 05:49:07.478][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-07 05:49:07.480][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 05:49:07.482][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 05:49:07.483][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 05:49:07.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:49:07.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:49:07.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:49:07.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:49:07.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:49:07.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:49:07.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:49:07.512][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:49:07.513][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:49:07.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.516][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:49:07.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:49:07.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.523][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:49:07.525][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:49:07.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.527][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.529][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:49:07.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:49:07.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.535][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:49:07.537][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:49:07.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.539][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.541][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:49:07.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:49:07.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.547][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:49:07.548][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:49:07.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.551][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.553][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:49:07.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:49:07.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.562][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:49:07.564][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:49:07.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.568][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:49:07.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:49:07.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.577][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:49:07.579][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:49:07.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.582][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:49:07.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:49:07.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.591][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:49:07.592][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:49:07.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.595][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.598][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:49:07.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:49:07.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.603][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:49:07.605][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:49:07.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.607][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.609][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:49:07.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:49:07.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.615][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:49:07.616][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:49:07.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.619][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.621][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:49:07.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:49:07.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.626][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:49:07.635][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:49:07.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.640][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.643][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:49:07.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:49:07.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.650][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:49:07.652][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:49:07.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.655][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.657][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:49:07.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:49:07.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.663][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:49:07.664][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:49:07.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.667][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:49:07.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:49:07.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.675][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:49:07.677][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:49:07.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.680][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:49:07.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:49:07.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:07.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:49:07.688][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:49:07.728][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:49:18.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:49:19.581][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:15.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:16.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:16.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:16.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:16.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.167][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.202][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:16.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:16.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.210][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:50:16.211][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:50:16.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.215][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.218][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:50:16.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:50:16.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.225][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:50:16.233][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:50:16.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.236][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.239][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:50:16.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:50:16.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.245][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:50:16.247][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:16.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.259][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:50:16.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:16.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:16.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:16.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:16.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:16.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:16.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:16.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.315][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:16.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:16.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.816][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:16.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:16.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.842][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:16.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:16.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.850][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:50:16.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:50:16.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.857][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:50:16.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:50:16.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.893][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:50:16.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:50:16.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:50:16.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:50:16.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:50:16.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:50:16.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:50:16.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:50:16.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:16.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:16.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:16.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:16.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:16.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:16.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:17.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:17.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.362][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:17.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:17.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.369][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:17.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.376][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:17.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:17.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.382][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:17.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:17.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.388][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:17.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:17.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.394][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:17.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:17.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.400][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:17.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:17.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.406][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:17.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:17.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.412][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:17.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:17.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.418][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:50:17.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:50:17.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.424][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:50:17.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:50:17.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.430][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:50:17.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:50:17.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.436][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:50:17.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:50:17.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.442][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:50:17.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:50:17.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.448][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:50:17.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:50:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:50:17.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:50:17.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:50:17.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:50:17.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:50:17.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:50:17.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:17.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:17.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:17.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:17.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:17.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:17.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.505][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:17.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:17.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.510][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:17.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:17.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.516][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:17.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:17.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:17.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:17.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:17.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:17.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:17.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:17.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:17.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:17.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:17.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:17.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:17.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:17.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.558][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:17.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:17.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.564][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:17.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:17.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.569][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:17.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:17.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.575][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:17.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:17.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.581][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:17.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:17.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:17.587][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:17.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:17.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.136][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:50:19.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:50:19.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:50:19.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:50:19.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.151][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:50:19.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:50:19.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.158][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:50:19.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.182][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:50:19.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:19.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:19.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:19.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:19.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:19.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:19.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:19.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:19.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:19.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:19.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.457][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:50:19.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:50:19.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.475][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:50:19.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:50:19.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.492][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:50:19.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:50:19.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:50:19.552][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-07 05:50:19.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:19.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:19.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:19.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:19.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-07 05:50:19.587][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-07 05:50:19.590][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-07 05:50:19.592][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-07 05:50:19.593][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-07 05:50:19.594][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:19.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:19.597][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:19.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:19.599][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:19.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-07 05:50:19.613][biodb::testContext]
biodb.INFO [2025-03-07 05:50:19.617][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:50:19.618][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-03-07 05:50:19.620][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 05:50:19.622][biodb::testContext]
biodb.INFO [2025-03-07 05:50:20.701][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-07 05:50:20.789][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-07 05:50:20.873][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:50:20.880][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-07 05:50:20.926][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-07 05:50:23.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.248][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-07 05:50:23.250][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-07 05:50:23.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.257][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-07 05:50:23.260][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-07 05:50:23.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.266][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[2025-03-07 05:50:23.268][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-07 05:50:23.270][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-07 05:50:23.272][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-07 05:50:23.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.279][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-07 05:50:23.281][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-07 05:50:23.283][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-07 05:50:23.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.291][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-07 05:50:23.305][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-07 05:50:23.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.319][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-07 05:50:23.323][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-07 05:50:23.324][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-07 05:50:23.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.330][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-07 05:50:23.332][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-07 05:50:23.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.339][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-07 05:50:23.340][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-07 05:50:23.355][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-07 05:50:23.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.366][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-07 05:50:23.367][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-07 05:50:23.370][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-07 05:50:23.372][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-07 05:50:23.375][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-07 05:50:23.378][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-07 05:50:23.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.384][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-07 05:50:23.388][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-07 05:50:23.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.393][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[2025-03-07 05:50:23.394][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-07 05:50:23.396][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-07 05:50:23.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.409][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-07 05:50:23.411][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-07 05:50:23.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.417][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-07 05:50:23.419][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-07 05:50:23.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.434][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-07 05:50:23.436][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-07 05:50:23.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.448][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-07 05:50:23.450][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-07 05:50:23.718][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-07 05:50:23.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.733][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-07 05:50:23.735][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-07 05:50:23.741][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-07 05:50:23.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.750][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-07 05:50:23.754][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.755][self$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[2025-03-07 05:50:23.757][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.758][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:50:23.760][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.761][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.763][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.764][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.766][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 05:50:23.767][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:50:23.777][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.778][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-07 05:50:23.780][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:50:23.781][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.783][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.784][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:50:23.784][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 05:50:23.784][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 05:50:23.784][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 05:50:23.784][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 05:50:23.785][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:50:23.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.789][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:50:23.791][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.793][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.794][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.796][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:50:23.797][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:50:23.798][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.800][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.802][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-07 05:50:23.804][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.811][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 05:50:23.813][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.815][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:50:23.816][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.818][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.819][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.821][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.822][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 05:50:23.824][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:50:23.825][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.827][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-07 05:50:23.828][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:50:23.830][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.831][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.832][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:50:23.832][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 05:50:23.832][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 05:50:23.832][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 05:50:23.832][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 05:50:23.834][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:50:23.835][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.838][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:50:23.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.842][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.844][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.851][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:50:23.853][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:50:23.854][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.856][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.858][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-07 05:50:23.862][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.864][self$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[2025-03-07 05:50:23.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.868][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:50:23.870][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.872][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.873][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.875][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.877][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 05:50:23.879][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:50:23.881][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.883][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-07 05:50:23.885][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:50:23.886][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.888][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.890][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.892][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:50:23.893][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.897][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:50:23.899][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.900][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.902][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.903][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.905][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:50:23.907][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:50:23.909][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.910][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.912][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-07 05:50:23.915][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.917][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 05:50:23.919][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.920][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:50:23.922][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.923][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.925][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.926][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.928][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 05:50:23.930][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:50:23.931][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.933][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-07 05:50:23.934][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:50:23.936][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.937][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:23.939][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.940][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 05:50:23.942][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.943][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.945][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:50:23.946][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:23.948][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:23.964][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:50:23.967][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.968][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:50:23.970][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:50:23.971][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:23.972][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:23.974][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:50:23.976][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:23.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:23.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:23.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:23.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:23.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:23.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:23.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:23.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:23.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:24.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:24.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:24.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:24.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:24.192][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-07 05:50:26.819][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-07 05:50:26.844][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-07 05:50:26.847][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-07 05:50:26.850][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-07 05:50:26.852][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 05:50:26.855][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-07 05:50:26.862][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-07 05:50:26.869][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-07 05:50:26.871][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 05:50:26.893][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 05:50:26.896][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-07 05:50:26.902][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-07 05:50:26.904][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-07 05:50:26.911][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-07 05:50:26.917][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 05:50:26.919][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-07 05:50:26.934][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-07 05:50:26.942][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-07 05:50:26.949][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-07 05:50:26.952][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-07 05:50:26.958][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-07 05:50:26.965][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-07 05:50:26.968][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-07 05:50:26.970][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-07 05:50:26.973][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-07 05:50:26.975][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-07 05:50:26.977][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-07 05:50:26.980][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-07 05:50:26.982][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-07 05:50:26.984][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-07 05:50:26.987][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-07 05:50:26.989][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-07 05:50:26.991][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-07 05:50:26.993][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-07 05:50:26.996][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-07 05:50:26.999][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-07 05:50:27.001][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-07 05:50:27.003][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-07 05:50:27.006][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-07 05:50:27.008][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-07 05:50:27.011][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-07 05:50:27.013][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-07 05:50:27.016][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-07 05:50:27.018][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-07 05:50:27.021][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-07 05:50:27.023][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-07 05:50:27.026][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-07 05:50:27.028][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-07 05:50:27.032][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-07 05:50:27.035][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-07 05:50:27.038][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-07 05:50:27.040][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-07 05:50:27.043][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-07 05:50:27.045][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-07 05:50:27.048][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-07 05:50:27.051][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-07 05:50:27.053][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-07 05:50:27.056][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-07 05:50:27.059][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-07 05:50:27.061][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-07 05:50:27.064][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-07 05:50:27.066][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-07 05:50:27.070][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-07 05:50:27.072][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-07 05:50:27.075][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-07 05:50:27.078][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-07 05:50:27.080][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-07 05:50:27.084][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-07 05:50:27.086][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-07 05:50:27.089][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-07 05:50:27.092][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-07 05:50:27.094][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-07 05:50:27.097][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-07 05:50:27.099][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-07 05:50:27.102][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-07 05:50:27.104][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-07 05:50:27.107][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-07 05:50:27.109][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-07 05:50:27.128][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-07 05:50:27.131][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-07 05:50:27.134][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-07 05:50:27.136][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-07 05:50:27.139][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-07 05:50:27.160][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-07 05:50:27.162][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 05:50:27.164][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.167][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.286][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[2025-03-07 05:50:27.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:27.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 05:50:27.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:27.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:27.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:27.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:27.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:27.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:50:28.316][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-07 05:50:28.363][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:50:28.366][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:28.374][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-07 05:50:28.376][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:28.377][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 05:50:28.379][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:28.381][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-07 05:50:28.382][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:28.384][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 05:50:28.385][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-07 05:50:28.387][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 05:50:28.389][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:28.390][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-07 05:50:28.392][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-07 05:50:28.393][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-07 05:50:28.395][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-07 05:50:28.397][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 05:50:28.397][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-07 05:50:28.397][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-07 05:50:28.398][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-07 05:50:28.400][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:28.401][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:28.403][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 05:50:28.404][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 05:50:28.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 05:50:28.407][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 05:50:28.416][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 05:50:28.416][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-07 05:50:28.418][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:50:28.419][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:50:28.425][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-07 05:50:28.426][self$setPropertyValue]
biodb.DEBUG[2025-03-07 05:50:28.428][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-07 05:50:28.437][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 05:50:28.446][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 05:50:28.453][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 05:50:28.456][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 05:50:28.470][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:50:28.472][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-07 05:50:28.479][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:50:28.487][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:50:28.489][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:50:28.491][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:50:28.509][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-07 05:50:28.511][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-07 05:50:28.520][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 05:50:28.520][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-07 05:50:28.522][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 05:50:28.523][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 05:50:28.533][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-07 05:50:28.534][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-07 05:50:28.536][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 05:50:28.547][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:50:28.557][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:50:28.559][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:50:28.570][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 05:50:28.572][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 05:50:28.582][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-07 05:50:28.584][biodb::testThat]
biodb.INFO [2025-03-07 05:50:28.594][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-03-07 05:50:28.596][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 05:50:28.602][biodb::testThat]
biodb.DEBUG[2025-03-07 05:50:28.618][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 05:50:28.620][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-07 05:50:28.626][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-07 05:50:28.665][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:50:28.668][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:50:28.674][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:50:28.684][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:50:28.686][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:50:28.724][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:50:28.734][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:50:28.736][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:50:28.745][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:50:28.747][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 05:50:28.748][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-03-07 05:50:28.769][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-07 05:50:28.771][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 05:50:28.782][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:50:28.784][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 05:50:28.795][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 05:50:28.805][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 05:50:28.842][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-07 05:50:28.853][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 05:50:28.869][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 05:50:28.871][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 05:50:28.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:50:28.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:50:28.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:50:28.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:50:28.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:50:28.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:50:28.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:50:30.408][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:30.419][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:30.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.423][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:30.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:30.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.434][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:30.435][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:30.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.452][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.463][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:30.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:50:30.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.487][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:30.493][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:30.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.501][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.503][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:30.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:30.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.520][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:50:30.526][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:50:30.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.529][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.531][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:50:30.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:50:30.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.541][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:50:30.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:50:30.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.546][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:50:30.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:50:30.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.557][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:30.559][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:30.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.562][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:30.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:50:30.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.574][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:30.576][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:30.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.579][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.582][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:30.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:50:30.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.588][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:30.590][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:30.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:30.596][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:30.801][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:34.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:50:36.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.152][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:36.155][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:36.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.221][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.262][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:36.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:50:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.303][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:36.309][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:36.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.317][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.320][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:36.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:50:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.335][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:50:36.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:50:36.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.349][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.351][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:50:36.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:50:36.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.367][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:50:36.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:50:36.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.381][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:50:36.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:50:36.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.400][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:36.406][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:36.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.413][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:50:36.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:50:36.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.432][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:36.438][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:36.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.446][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:36.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:50:36.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.480][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:36.486][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:36.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.494][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:50:36.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:50:36.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.518][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:50:36.520][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:50:36.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.528][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.534][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:50:36.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:50:36.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:50:36.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:50:36.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.571][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.574][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:50:36.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:50:36.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.582][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:50:36.584][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:36.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.591][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:50:36.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:50:36.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:36.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:36.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:36.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:36.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:50:36.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:50:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.623][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:36.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:36.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.630][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:36.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:36.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.654][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:50:36.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:50:36.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.663][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:50:36.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:50:36.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:50:36.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:50:36.670][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:50:36.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:50:36.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.105][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:51:13.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:51:13.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:13.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:13.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:13.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:13.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:13.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:13.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:13.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:13.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:13.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:13.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:13.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:13.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.182][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:13.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:13.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.188][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:13.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:13.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.194][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:13.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:13.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.200][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:13.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:13.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:13.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:13.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.218][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:13.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:13.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:13.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:13.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:13.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:13.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.246][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:13.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:13.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.255][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:13.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:13.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.264][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:13.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:13.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.272][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:13.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:13.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:13.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:13.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:13.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:13.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:13.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:13.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:13.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:13.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:15.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:15.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:15.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:15.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:15.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:15.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:15.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:15.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:15.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.794][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:15.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:15.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.810][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:15.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:15.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.826][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:15.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:15.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:15.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:15.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:15.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:15.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:15.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:15.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:15.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:15.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:15.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:15.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:15.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:15.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.930][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:15.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:15.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.946][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:15.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:15.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.962][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:15.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:15.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.978][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:15.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:15.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:15.995][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:16.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:16.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.011][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:16.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:16.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:16.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:16.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:16.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:16.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.069][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:16.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:16.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.086][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:51:16.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:51:16.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:16.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:16.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:16.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:16.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:16.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:16.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:16.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:16.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:16.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:16.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:16.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.468][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:16.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:16.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.474][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:16.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:16.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:16.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:16.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.487][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:16.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:16.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:16.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:16.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:16.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:16.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:16.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:16.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:16.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:16.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:16.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:16.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:16.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:16.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:24.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:24.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:24.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:24.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:24.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:24.144][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-07 05:51:24.151][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:24.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:24.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:24.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:24.163][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:24.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:24.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:24.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:24.171][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:24.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:24.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:24.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:24.178][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:24.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:24.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:24.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:24.185][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:51:24.187][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 05:51:24.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:51:24.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:24.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:24.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:24.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:24.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:24.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:51:24.257][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-07 05:51:24.266][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 05:51:26.133][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:51:26.293][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 05:51:26.304][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-07 05:51:26.312][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 05:51:26.325][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-07 05:51:26.327][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 05:51:26.329][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 05:51:26.331][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 05:51:26.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:51:26.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:26.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:26.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:26.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:26.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:26.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:51:26.379][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:27.137][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:27.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.149][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:27.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:27.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.170][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:27.171][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:27.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.179][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.185][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:27.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:27.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.192][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:51:27.193][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:51:27.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.196][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.198][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:51:27.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:51:27.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.205][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:51:27.206][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:51:27.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.209][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.211][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:51:27.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:51:27.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:27.219][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:27.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.222][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:27.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:27.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.230][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:27.231][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:27.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.234][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:27.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:27.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.242][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:27.244][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:27.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.247][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.249][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:27.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.255][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:27.256][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:27.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.259][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.261][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:27.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:27.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.268][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:27.269][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:27.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.274][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:27.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:27.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.281][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:27.282][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:27.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.285][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.287][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:27.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:27.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.300][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:27.303][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:27.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.306][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:27.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.314][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:27.315][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:27.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.318][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:27.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:27.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:27.326][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:27.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.329][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:27.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:27.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.336][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:27.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:27.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.340][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:27.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.348][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:27.349][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:27.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.352][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.354][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:27.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:27.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:27.374][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:27.375][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:27.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:27.378][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.132][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:33.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:33.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.154][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:33.157][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:33.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.160][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:33.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:33.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.194][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:51:33.196][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:33.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.199][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.201][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 05:51:33.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:33.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:33.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:33.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:33.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:33.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:33.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:33.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.229][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:51:33.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:51:33.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.236][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:51:33.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:51:33.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.259][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 05:51:33.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 05:51:33.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.274][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:51:33.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:51:33.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.290][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:51:33.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:51:33.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:33.316][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 05:51:33.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 05:51:33.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:33.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:34.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:34.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:34.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:34.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 05:51:34.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 05:51:34.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:34.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:34.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:34.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:34.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:34.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 05:51:34.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.463][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:34.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:34.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.469][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:34.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:34.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.475][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:34.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 05:51:34.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.482][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:34.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:34.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:34.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.494][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:34.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 05:51:34.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.499][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:34.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:34.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.505][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:34.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:34.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.510][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:34.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 05:51:34.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.516][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:34.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:34.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.521][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:34.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:34.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.527][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:34.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:34.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:34.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:34.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.543][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:34.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:34.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.556][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 05:51:34.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 05:51:34.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:34.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:34.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:34.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:34.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 05:51:34.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 05:51:34.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.605][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:34.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:34.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.611][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:34.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:34.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.617][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:34.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 05:51:34.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:34.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:34.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:34.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:34.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:34.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 05:51:34.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.646][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:34.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:34.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.652][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:34.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:34.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:34.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:34.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.663][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:34.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:34.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.669][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:34.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:34.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.675][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:34.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 05:51:34.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.681][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:34.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:34.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.687][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:34.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:34.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.693][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:34.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 05:51:34.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:34.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:34.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.706][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:34.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:34.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.718][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 05:51:34.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 05:51:34.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.733][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:51:34.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:34.760][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 05:51:34.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 05:51:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:34.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:35.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:39.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:39.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:39.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:39.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:39.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:39.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:39.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 05:51:39.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 05:51:39.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.213][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:39.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:39.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.219][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:39.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:39.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:39.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:39.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.232][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:39.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 05:51:39.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:39.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:39.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:39.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:39.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:39.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:39.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:39.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:39.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:39.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:39.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 05:51:39.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 05:51:39.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:39.276][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-07 05:51:39.277][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.283][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.295][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:39.301][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:51:39.303][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:51:39.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:51:39.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:39.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:39.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:39.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:39.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:39.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:51:39.333][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 05:51:39.335][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-07 05:51:39.336][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-07 05:51:39.345][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:51:39.348][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:51:39.350][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:51:39.359][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:51:39.361][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:51:39.371][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:51:39.372][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:51:39.374][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:51:39.376][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:51:39.381][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 05:51:39.416][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 05:51:39.420][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.436][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.442][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.448][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.456][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.467][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:39.473][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:51:39.475][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 05:51:39.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:51:39.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:39.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:39.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:39.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:39.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:39.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:51:39.510][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.516][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.522][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.527][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.533][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.545][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.551][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:39.557][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-07 05:51:39.559][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 05:51:39.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:51:39.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:39.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:39.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:39.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:39.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:39.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 05:51:39.584][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 05:51:39.586][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-07 05:51:39.587][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-07 05:51:39.627][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:51:39.630][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:51:39.632][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 05:51:39.634][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 05:51:39.636][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 05:51:39.638][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 05:51:39.640][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 05:51:39.641][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 05:51:39.649][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 05:51:39.651][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 05:51:39.653][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 05:51:39.657][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.687][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.697][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.709][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:39.715][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:39.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:39.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:39.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:39.722][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-07 05:51:39.723][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-03-07 05:51:39.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:51:39.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:39.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:51.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:51.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:51.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:51.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 05:51:51.272][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:51.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:51.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:51.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:51.280][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:51.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:51.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:51.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:51.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:51.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:51.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:51.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:51.296][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:51.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:51.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:51.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:51.303][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:51.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:51.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:51.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:51.310][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:51.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:51.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:51.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 05:51:51.317][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 05:51:51.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 05:51:51.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 05:51:51.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 05:51:51.323][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 05:51:51.325][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 05:51:51.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 05:51:51.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:51.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:51.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:51.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:51.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:51.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-07 05:51:51.357][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-07 05:51:51.359][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-07 05:51:51.361][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-07 05:51:51.362][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-07 05:51:51.364][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 05:51:51.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 05:51:51.366][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 05:51:51.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 05:51:51.369][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 05:51:51.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 13.595 122.367 431.169

Example timings