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This page was generated on 2025-04-02 19:35 -0400 (Wed, 02 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4764
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4495
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4522
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4449
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4426
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: 2025-03-31 13:00 -0400 (Mon, 31 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 -0400 (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    ERROR    OK  
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    ERROR    OK  
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: 2025-04-01 04:18:43 -0000 (Tue, 01 Apr 2025)
EndedAt: 2025-04-01 04:34:00 -0000 (Tue, 01 Apr 2025)
EllapsedTime: 916.7 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 [2025-04-01 04:33:04.960][biodb::testContext]
biodb.INFO [2025-04-01 04:33:04.963][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:04.964][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-04-01 04:33:04.966][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:04.967][biodb::testContext]
biodb.INFO [2025-04-01 04:33:04.969][biodb::testThat]
biodb.INFO [2025-04-01 04:33:04.971][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-04-01 04:33:04.972][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:04.973][biodb::testThat]
biodb.INFO [2025-04-01 04:33:05.108][biodb::testContext]
biodb.INFO [2025-04-01 04:33:05.109][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:05.111][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-04-01 04:33:05.112][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:05.114][biodb::testContext]
biodb.INFO [2025-04-01 04:33:05.125][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-04-01 04:33:05.128][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-04-01 04:33:05.139][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:05.140][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-01 04:33:05.142][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-01 04:33:05.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.147][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-01 04:33:05.185][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-01 04:33:05.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.191][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-01 04:33:05.192][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-01 04:33:05.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.198][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-01 04:33:05.199][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-01 04:33:05.201][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-01 04:33:05.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.206][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-01 04:33:05.208][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-01 04:33:05.209][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-01 04:33:05.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.215][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-01 04:33:05.216][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-01 04:33:05.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.222][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-01 04:33:05.223][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-01 04:33:05.225][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-01 04:33:05.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.230][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-01 04:33:05.232][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-01 04:33:05.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.237][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-01 04:33:05.239][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-01 04:33:05.240][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-01 04:33:05.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.246][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-01 04:33:05.247][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-01 04:33:05.249][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-01 04:33:05.251][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-01 04:33:05.252][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-01 04:33:05.254][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-01 04:33:05.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.260][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-01 04:33:05.261][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-01 04:33:05.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.267][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-01 04:33:05.269][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-01 04:33:05.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.275][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-01 04:33:05.276][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-01 04:33:05.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.282][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-01 04:33:05.283][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-01 04:33:05.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.289][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-01 04:33:05.290][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-01 04:33:05.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.295][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-01 04:33:05.297][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-01 04:33:05.302][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-01 04:33:05.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.307][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-01 04:33:05.308][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-01 04:33:05.310][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-01 04:33:05.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.318][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-01 04:33:05.364][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.387][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-04-01 04:33:05.388][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.390][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:05.391][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.392][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.393][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.395][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.396][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-01 04:33:05.398][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:05.399][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.400][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-01 04:33:05.402][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:05.403][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.404][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.406][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:05.406][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-01 04:33:05.406][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-01 04:33:05.406][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-01 04:33:05.406][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-01 04:33:05.407][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:05.408][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.409][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.411][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:05.412][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.413][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.414][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.416][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.417][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:05.418][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:05.419][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.421][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.422][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-01 04:33:05.425][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.426][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-01 04:33:05.435][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.436][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:05.437][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.439][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.440][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.441][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.443][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-01 04:33:05.444][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:05.445][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.447][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-01 04:33:05.448][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:05.449][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.450][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.452][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:05.452][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-01 04:33:05.452][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-01 04:33:05.452][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-01 04:33:05.452][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-01 04:33:05.453][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:05.454][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.457][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:05.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.461][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.462][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.463][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:05.464][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:05.466][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.467][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.468][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-01 04:33:05.471][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.472][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-04-01 04:33:05.474][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.475][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:05.476][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.478][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.479][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.480][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.482][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-01 04:33:05.483][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:05.484][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.486][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-01 04:33:05.487][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:05.488][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.490][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.491][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.492][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:05.494][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.495][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.496][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:05.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.499][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.500][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.501][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.502][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:05.504][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:05.505][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.506][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.508][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-01 04:33:05.510][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.512][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-01 04:33:05.513][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.514][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:05.516][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.517][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.518][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.520][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.521][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-01 04:33:05.522][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:05.524][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.525][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-01 04:33:05.527][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:05.528][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.529][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:05.531][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.532][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:05.533][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.534][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.536][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:05.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:05.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:05.539][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:05.541][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.542][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:05.543][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:05.545][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:05.546][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:05.551][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:05.552][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.553][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[2025-04-01 04:33:05.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.620][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[2025-04-01 04:33:05.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.657][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-01 04:33:05.663][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-01 04:33:05.665][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-01 04:33:05.667][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-01 04:33:05.669][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-01 04:33:05.678][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-01 04:33:05.679][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-01 04:33:05.681][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-01 04:33:05.683][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-01 04:33:05.685][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-01 04:33:05.687][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-01 04:33:05.689][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-01 04:33:05.691][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-01 04:33:05.692][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-01 04:33:05.694][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-01 04:33:05.696][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-01 04:33:05.698][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-01 04:33:05.700][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-01 04:33:05.702][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-01 04:33:05.704][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-01 04:33:05.706][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-01 04:33:05.707][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-01 04:33:05.709][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-01 04:33:05.711][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-01 04:33:05.713][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-01 04:33:05.715][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-01 04:33:05.717][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-01 04:33:05.719][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-01 04:33:05.721][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-01 04:33:05.723][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-01 04:33:05.725][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-01 04:33:05.727][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-01 04:33:05.729][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-01 04:33:05.730][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-01 04:33:05.732][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-01 04:33:05.734][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-01 04:33:05.736][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-01 04:33:05.738][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-01 04:33:05.740][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-01 04:33:05.742][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-01 04:33:05.744][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-01 04:33:05.746][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-01 04:33:05.748][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-01 04:33:05.750][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-01 04:33:05.752][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-01 04:33:05.754][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-01 04:33:05.756][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-01 04:33:05.758][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-01 04:33:05.759][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-01 04:33:05.761][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-01 04:33:05.763][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-01 04:33:05.765][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-01 04:33:05.767][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-01 04:33:05.769][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-01 04:33:05.771][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-01 04:33:05.773][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-01 04:33:05.775][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-01 04:33:05.777][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-01 04:33:05.779][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-01 04:33:05.781][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-01 04:33:05.783][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-01 04:33:05.784][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-01 04:33:05.786][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-01 04:33:05.788][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-01 04:33:05.790][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-01 04:33:05.792][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-01 04:33:05.794][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-01 04:33:05.796][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-01 04:33:05.798][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-01 04:33:05.800][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-01 04:33:05.802][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-01 04:33:05.804][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-01 04:33:05.806][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-01 04:33:05.808][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-01 04:33:05.810][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-01 04:33:05.812][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-01 04:33:05.814][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-01 04:33:05.816][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-01 04:33:05.818][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-01 04:33:05.821][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-01 04:33:05.823][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-01 04:33:05.825][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-01 04:33:05.827][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-01 04:33:05.835][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-01 04:33:05.837][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-04-01 04:33:05.841][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:05.842][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.845][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.860][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[2025-04-01 04:33:05.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.886][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[2025-04-01 04:33:05.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.966][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.DEBUG[2025-04-01 04:33:05.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:05.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:05.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:05.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:05.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:05.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:05.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:05.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:06.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:06.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:06.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:06.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:06.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:06.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:06.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:06.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:06.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:06.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:06.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:06.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:06.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:06.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:06.016][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[2025-04-01 04:33:06.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:06.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:06.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:06.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:06.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:06.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:06.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:06.027][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-04-01 04:33:06.041][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:06.043][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:06.045][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-04-01 04:33:06.046][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:06.048][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:06.049][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:06.050][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-04-01 04:33:06.052][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:06.053][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:06.055][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-04-01 04:33:06.056][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:06.057][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:06.059][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-04-01 04:33:06.060][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-04-01 04:33:06.061][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-04-01 04:33:06.063][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:06.064][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:06.064][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-04-01 04:33:06.064][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-04-01 04:33:06.066][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-01 04:33:06.067][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:06.068][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:06.069][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:06.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:06.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:06.073][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:06.074][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-04-01 04:33:06.074][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-04-01 04:33:06.076][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:06.077][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:06.078][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:06.080][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:06.088][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-04-01 04:33:06.090][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-01 04:33:06.092][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-01 04:33:06.094][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-01 04:33:06.096][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-01 04:33:06.124][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:06.125][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-04-01 04:33:06.130][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:06.135][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-04-01 04:33:06.141][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:06.142][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:06.144][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-04-01 04:33:06.145][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-04-01 04:33:06.147][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-04-01 04:33:06.147][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-04-01 04:33:06.148][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:06.149][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:06.150][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-04-01 04:33:06.152][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-04-01 04:33:06.153][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:06.186][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-04-01 04:33:06.188][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:06.189][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:06.191][private$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[2025-04-01 04:33:06.193][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:06.194][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-04-01 04:33:06.204][biodb::testThat]
biodb.INFO [2025-04-01 04:33:06.205][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-04-01 04:33:06.207][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:06.208][biodb::testThat]
biodb.TRACE[2025-04-01 04:33:06.213][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[2025-04-01 04:33:06.216][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-04-01 04:33:06.220][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-04-01 04:33:06.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:06.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:06.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:06.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:06.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:06.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:06.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:06.256][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.258][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.261][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.285][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.287][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.289][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.326][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.332][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.333][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.336][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.338][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.343][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.345][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.347][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.349][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.354][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.358][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.366][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.367][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.370][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.377][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.378][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.381][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.383][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.388][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.390][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.403][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.405][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.411][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.412][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.415][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.417][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.422][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.424][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.426][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.428][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.434][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:06.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:06.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.438][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:06.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:06.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:06.447][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:06.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.449][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:06.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:06.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.457][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.458][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.461][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.469][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.470][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.473][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.480][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.482][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.484][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.491][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:06.493][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:06.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.495][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.497][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:06.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:06.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.503][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:06.504][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:06.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.507][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:06.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:06.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.514][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:06.515][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.518][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.520][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:06.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.595][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.601][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.606][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:06.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.611][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.616][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.621][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:06.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:06.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:06.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.659][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.664][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.670][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:06.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.675][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.680][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.686][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:06.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.691][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.696][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.702][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:06.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.707][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:06.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:06.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:06.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:06.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.718][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:06.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:06.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:06.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:06.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.728][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:06.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:06.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.734][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:06.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:06.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:06.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:06.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:06.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:06.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:06.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:06.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.771][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.777][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.782][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:06.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:06.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.825][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.831][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.836][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:06.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.842][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.847][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.852][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:06.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.858][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:06.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:06.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.863][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:06.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:06.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.869][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:06.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:06.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.874][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:06.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.895][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:06.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:06.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:06.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:06.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.953][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:06.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:06.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.958][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:06.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:06.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.969][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:06.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:06.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:06.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:06.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:06.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:06.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:07.013][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-04-01 04:33:07.016][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-01 04:33:07.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-01 04:33:07.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.022][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-01 04:33:07.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-01 04:33:07.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.027][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-01 04:33:07.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-01 04:33:07.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.033][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-01 04:33:07.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-01 04:33:07.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.068][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.113][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.118][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.124][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:07.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.156][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.158][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.160][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.179][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.185][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.199][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.205][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.207][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.210][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:07.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.245][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.247][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.250][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.267][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.272][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.277][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.283][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.284][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.287][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.288][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:07.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.319][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.323][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.345][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.350][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.356][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.357][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.359][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.361][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:07.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:07.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:07.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:07.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:07.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:07.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.399][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:07.400][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:07.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.402][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.404][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:07.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:07.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.419][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:07.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:07.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.424][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:07.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:07.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.429][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:07.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:07.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.435][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:07.436][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:07.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.439][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.440][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:07.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:07.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.455][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:07.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:07.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:07.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:07.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:07.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:07.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.472][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:07.473][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:07.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.476][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:07.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:07.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.492][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.498][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.503][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.508][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.510][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.512][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.514][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.545][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.546][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.549][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.566][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.572][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.577][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.589][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.591][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.593][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.595][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.610][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.615][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.620][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.625][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.627][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.629][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.631][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.646][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.651][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.662][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.664][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.666][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.668][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.683][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:07.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:07.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.688][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:07.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:07.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.694][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:07.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:07.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.699][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:07.700][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:07.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.703][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.704][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:07.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:07.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:07.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:07.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:07.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:07.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:07.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:07.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.738][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:07.740][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:07.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.742][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.744][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:07.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:07.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.778][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.780][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.790][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.814][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.826][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.828][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.831][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.832][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.849][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:07.850][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:07.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.853][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.860][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.861][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:07.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.864][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.871][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.872][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:07.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.875][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.882][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.883][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:07.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.886][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.893][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.895][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:07.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.897][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.904][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.906][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:07.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.908][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.915][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.917][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:07.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.919][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.926][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.928][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:07.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.931][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.937][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:07.939][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:07.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.942][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.949][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:07.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:07.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.953][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:07.962][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:07.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.964][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.971][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.973][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:07.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.975][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.982][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.983][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:07.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.986][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:07.993][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:07.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:07.997][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.010][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.015][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.021][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.023][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.025][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.032][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.034][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.036][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.043][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:08.045][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:08.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.048][ef$get] fields variable is a list.
biodb.INFO [2025-04-01 04:33:08.060][biodb::testThat]
biodb.INFO [2025-04-01 04:33:08.062][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-04-01 04:33:08.063][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:08.065][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:08.087][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-04-01 04:33:08.096][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-04-01 04:33:08.105][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:08.108][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-04-01 04:33:08.111][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-04-01 04:33:08.113][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-01 04:33:08.117][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-04-01 04:33:08.119][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-04-01 04:33:08.153][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-04-01 04:33:08.155][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-04-01 04:33:08.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:08.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:08.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:08.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:08.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:08.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:08.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:08.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.178][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.185][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.187][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.189][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.191][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.197][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.198][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.201][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.202][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.208][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.209][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.220][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.222][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.228][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.231][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.238][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.239][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.242][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.253][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.255][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.260][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.262][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.264][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.266][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.271][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.273][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.275][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.277][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.283][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.284][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.287][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.288][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.294][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:08.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:08.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.298][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:08.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:08.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.305][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:08.307][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:08.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.309][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:08.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:08.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.316][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.318][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.320][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.328][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.329][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.331][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.339][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.340][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.343][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.345][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.350][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:08.351][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:08.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.354][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:08.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:08.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.361][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:08.363][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:08.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.365][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:08.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:08.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.373][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:08.374][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.377][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.378][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:08.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.400][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.412][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.417][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:08.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.423][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.428][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.433][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:08.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:08.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:08.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.472][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.477][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.483][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:08.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.493][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.499][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:08.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.504][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.509][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.515][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:08.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:08.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:08.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.526][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:08.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:08.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.531][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:08.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:08.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:08.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:08.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.542][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:08.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:08.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:08.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:08.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:08.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:08.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:08.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:08.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:08.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:08.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.584][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.590][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.601][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:08.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:08.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.638][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.644][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.650][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:08.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.656][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.661][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.667][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:08.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.672][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:08.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:08.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.678][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:08.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.683][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:08.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:08.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.689][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.719][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:08.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:08.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.756][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:08.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:08.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.762][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:08.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:08.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.773][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:08.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:08.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:08.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:08.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:08.828][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-04-01 04:33:08.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-04-01 04:33:08.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-04-01 04:33:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-04-01 04:33:08.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-04-01 04:33:08.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-04-01 04:33:08.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-04-01 04:33:08.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-01 04:33:08.857][biodb::testThat]
biodb.INFO [2025-04-01 04:33:08.858][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-04-01 04:33:08.860][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:08.861][biodb::testThat]
biodb.TRACE[2025-04-01 04:33:08.866][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.867][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.870][ef$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:08.872][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-04-01 04:33:08.911][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.917][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:08.931][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-04-01 04:33:08.933][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-04-01 04:33:08.934][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-04-01 04:33:08.935][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-04-01 04:33:08.938][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:08.939][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:08.941][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:08.943][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:08.944][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:08.946][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:08.948][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:08.949][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:08.950][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:08.952][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-04-01 04:33:08.953][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-04-01 04:33:08.955][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:08.972][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:08.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:08.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:08.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:08.977][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:08.978][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-04-01 04:33:08.980][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-04-01 04:33:08.995][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:08.997][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:08.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.007][ef$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.008][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-04-01 04:33:09.023][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:09.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.028][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:09.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:09.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:09.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:09.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.042][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[2025-04-01 04:33:09.117][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-04-01 04:33:09.118][private$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[2025-04-01 04:33:09.119][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-04-01 04:33:09.139][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.141][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.143][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:09.145][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.146][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:09.174][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:09.175][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:09.177][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:09.178][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:09.179][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-04-01 04:33:09.180][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-04-01 04:33:09.183][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:09.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:09.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.188][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:09.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:09.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:09.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:09.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.198][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:09.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.203][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:09.204][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-04-01 04:33:09.205][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-04-01 04:33:09.220][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.221][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.224][ef$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.225][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-04-01 04:33:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.250][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.259][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-04-01 04:33:09.261][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-04-01 04:33:09.262][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-04-01 04:33:09.263][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-04-01 04:33:09.265][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.267][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.269][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:09.271][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.272][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:09.274][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:09.275][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:09.276][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:09.277][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:09.279][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-04-01 04:33:09.280][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-04-01 04:33:09.282][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.288][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.293][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.298][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:09.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.303][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:09.305][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-04-01 04:33:09.306][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-04-01 04:33:09.324][biodb::testThat]
biodb.INFO [2025-04-01 04:33:09.325][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-04-01 04:33:09.326][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:09.328][biodb::testThat]
biodb.TRACE[2025-04-01 04:33:09.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:09.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:09.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:09.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:09.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:09.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.376][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-04-01 04:33:09.378][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-04-01 04:33:09.379][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-04-01 04:33:09.381][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.383][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.385][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:09.386][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:09.388][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:09.389][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:09.391][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:09.392][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:09.393][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:09.395][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-04-01 04:33:09.396][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-04-01 04:33:09.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:09.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:09.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:09.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:09.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:09.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:09.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:09.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:09.419][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:09.420][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-04-01 04:33:09.439][biodb::testThat]
biodb.INFO [2025-04-01 04:33:09.440][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-04-01 04:33:09.441][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:09.442][biodb::testThat]
biodb.TRACE[2025-04-01 04:33:09.469][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.480][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-01 04:33:09.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-01 04:33:09.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.485][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-01 04:33:09.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-01 04:33:09.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.553][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.559][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-01 04:33:09.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.564][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-01 04:33:09.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-01 04:33:09.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:09.569][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-01 04:33:09.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-01 04:33:09.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:09.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-01 04:33:09.582][biodb::testThat]
biodb.INFO [2025-04-01 04:33:09.583][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-04-01 04:33:09.584][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:09.585][biodb::testThat]
biodb.INFO [2025-04-01 04:33:09.595][biodb::testThat]
biodb.INFO [2025-04-01 04:33:09.596][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-04-01 04:33:09.598][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:09.599][biodb::testThat]
biodb.INFO [2025-04-01 04:33:09.609][biodb::testThat]
biodb.INFO [2025-04-01 04:33:09.610][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-04-01 04:33:09.611][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:09.613][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:09.617][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-04-01 04:33:47.186][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-04-01 04:33:47.746][biodb::testThat]
biodb.INFO [2025-04-01 04:33:47.748][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-04-01 04:33:47.749][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:47.750][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:52.175][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-04-01 04:33:52.706][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:52.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:52.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.711][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.712][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:52.713][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:52.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.716][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.717][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:52.719][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:52.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.721][ef$get] fields variable is a list.
biodb.INFO [2025-04-01 04:33:52.723][biodb::testThat]
biodb.INFO [2025-04-01 04:33:52.724][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-04-01 04:33:52.726][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:52.727][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:52.729][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-04-01 04:33:52.807][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-04-01 04:33:52.809][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:52.811][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-04-01 04:33:52.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-04-01 04:33:52.836][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-01 04:33:52.837][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-01 04:33:52.839][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-04-01 04:33:52.841][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:52.842][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-04-01 04:33:52.844][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-04-01 04:33:52.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:52.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:52.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:52.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:52.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:52.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:52.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:52.861][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:52.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:52.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.866][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:52.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:52.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:52.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:52.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:52.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:52.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:52.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:52.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:52.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:52.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:52.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:52.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:52.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:52.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:52.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:52.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:52.936][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-04-01 04:33:52.937][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-04-01 04:33:52.959][biodb::testThat]
biodb.INFO [2025-04-01 04:33:52.960][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-04-01 04:33:52.962][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:52.963][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:52.973][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-04-01 04:33:52.975][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-04-01 04:33:52.976][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-04-01 04:33:52.979][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:52.980][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-04-01 04:33:52.983][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-04-01 04:33:52.985][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-04-01 04:33:52.986][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-04-01 04:33:52.988][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-04-01 04:33:52.990][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:52.992][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-04-01 04:33:52.993][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-04-01 04:33:52.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:52.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:52.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:53.010][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:53.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:53.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.015][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:53.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:53.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:53.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:53.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:53.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:53.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:53.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:53.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:53.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:53.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:53.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:53.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:53.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:53.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:53.054][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-04-01 04:33:53.055][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-04-01 04:33:53.057][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-04-01 04:33:53.082][biodb::testThat]
biodb.INFO [2025-04-01 04:33:53.083][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-04-01 04:33:53.085][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:53.086][biodb::testThat]
biodb.INFO [2025-04-01 04:33:53.116][biodb::testThat]
biodb.INFO [2025-04-01 04:33:53.117][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-04-01 04:33:53.118][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:53.119][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:53.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:53.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:53.127][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:53.129][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:53.130][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:53.132][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:53.134][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:53.135][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:53.136][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-04-01 04:33:53.147][biodb::testThat]
biodb.INFO [2025-04-01 04:33:53.148][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-04-01 04:33:53.150][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:53.151][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:53.154][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:53.156][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:53.158][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:53.160][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:53.162][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:53.164][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:53.165][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:53.166][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:53.168][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-04-01 04:33:53.180][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:53.181][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:53.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.184][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.185][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:53.187][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:53.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.189][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:53.191][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:53.192][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:53.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:53.195][ef$get] fields variable is a list.
biodb.INFO [2025-04-01 04:33:53.196][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-01 04:33:53.198][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-04-01 04:33:53.209][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-04-01 04:33:53.210][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-01 04:33:53.211][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.214][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.216][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-04-01 04:33:53.230][biodb::testContext]
biodb.INFO [2025-04-01 04:33:53.231][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:53.232][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-04-01 04:33:53.234][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:53.235][biodb::testContext]
biodb.INFO [2025-04-01 04:33:53.239][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-04-01 04:33:53.242][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-04-01 04:33:53.246][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:53.248][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-01 04:33:53.249][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-01 04:33:53.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.254][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-01 04:33:53.256][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-01 04:33:53.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.260][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[2025-04-01 04:33:53.261][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-01 04:33:53.263][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-01 04:33:53.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.268][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-01 04:33:53.269][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-01 04:33:53.271][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-01 04:33:53.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.276][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-01 04:33:53.278][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-01 04:33:53.279][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-01 04:33:53.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.284][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-01 04:33:53.286][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-01 04:33:53.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.291][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-01 04:33:53.293][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-01 04:33:53.294][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-01 04:33:53.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.300][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-01 04:33:53.301][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-01 04:33:53.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.306][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-01 04:33:53.308][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-01 04:33:53.310][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-01 04:33:53.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.315][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-01 04:33:53.317][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-01 04:33:53.318][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-01 04:33:53.320][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-01 04:33:53.321][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-01 04:33:53.322][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-01 04:33:53.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.328][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-01 04:33:53.329][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-01 04:33:53.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.335][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-01 04:33:53.336][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-01 04:33:53.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.341][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-01 04:33:53.343][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-01 04:33:53.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.348][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-01 04:33:53.350][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-01 04:33:53.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.355][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-01 04:33:53.356][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-01 04:33:53.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.362][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-01 04:33:53.363][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-01 04:33:53.369][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-01 04:33:53.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.374][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-01 04:33:53.375][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-01 04:33:53.377][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-01 04:33:53.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.390][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-01 04:33:53.393][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.394][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-04-01 04:33:53.396][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.397][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:53.399][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.400][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.401][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.403][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.404][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-01 04:33:53.406][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:53.407][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.409][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-01 04:33:53.410][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:53.411][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.413][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.414][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:53.414][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-01 04:33:53.414][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-01 04:33:53.414][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-01 04:33:53.414][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-01 04:33:53.415][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:53.417][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.418][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.419][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:53.421][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.423][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.425][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.426][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:53.428][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:53.429][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.430][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.432][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-01 04:33:53.435][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.436][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-01 04:33:53.437][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.439][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:53.440][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.442][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.443][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.444][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.446][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-01 04:33:53.447][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:53.449][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.450][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-01 04:33:53.451][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:53.453][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.454][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.456][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:53.456][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-01 04:33:53.456][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-01 04:33:53.456][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-01 04:33:53.456][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-01 04:33:53.457][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:53.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.461][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:53.463][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.466][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.467][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.469][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:53.470][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:53.471][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.473][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.474][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-01 04:33:53.477][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.478][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-04-01 04:33:53.480][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.481][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:53.482][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.484][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.485][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.486][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.488][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-01 04:33:53.489][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:53.491][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.492][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-01 04:33:53.494][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:53.495][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.496][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.498][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.499][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:53.501][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.502][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.503][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:53.504][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.506][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.507][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.508][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.510][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:53.511][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:53.512][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.514][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.516][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-01 04:33:53.518][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.520][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-01 04:33:53.521][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.523][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:53.524][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.526][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.527][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.528][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.530][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-01 04:33:53.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:53.532][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.534][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-01 04:33:53.535][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:53.537][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.546][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:53.547][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.549][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:53.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.553][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:53.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:53.556][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:53.557][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:53.558][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.560][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:53.561][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:53.562][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:53.564][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:53.566][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:53.567][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.630][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[2025-04-01 04:33:53.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.679][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[2025-04-01 04:33:53.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.688][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-01 04:33:53.690][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-01 04:33:53.693][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-01 04:33:53.695][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-01 04:33:53.697][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-01 04:33:53.700][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-01 04:33:53.702][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-01 04:33:53.713][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-01 04:33:53.716][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-01 04:33:53.718][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-01 04:33:53.721][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-01 04:33:53.723][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-01 04:33:53.726][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-01 04:33:53.728][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-01 04:33:53.731][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-01 04:33:53.733][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-01 04:33:53.736][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-01 04:33:53.738][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-01 04:33:53.741][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-01 04:33:53.743][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-01 04:33:53.746][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-01 04:33:53.748][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-01 04:33:53.751][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-01 04:33:53.753][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-01 04:33:53.756][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-01 04:33:53.758][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-01 04:33:53.761][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-01 04:33:53.763][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-01 04:33:53.766][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-01 04:33:53.768][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-01 04:33:53.771][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-01 04:33:53.773][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-01 04:33:53.776][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-01 04:33:53.778][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-01 04:33:53.780][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-01 04:33:53.783][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-01 04:33:53.785][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-01 04:33:53.787][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-01 04:33:53.789][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-01 04:33:53.791][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-01 04:33:53.793][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-01 04:33:53.795][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-01 04:33:53.797][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-01 04:33:53.799][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-01 04:33:53.801][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-01 04:33:53.803][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-01 04:33:53.805][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-01 04:33:53.808][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-01 04:33:53.810][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-01 04:33:53.812][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-01 04:33:53.815][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-01 04:33:53.817][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-01 04:33:53.819][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-01 04:33:53.821][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-01 04:33:53.823][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-01 04:33:53.826][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-01 04:33:53.828][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-01 04:33:53.830][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-01 04:33:53.833][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-01 04:33:53.835][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-01 04:33:53.837][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-01 04:33:53.839][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-01 04:33:53.842][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-01 04:33:53.844][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-01 04:33:53.846][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-01 04:33:53.849][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-01 04:33:53.851][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-01 04:33:53.853][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-01 04:33:53.855][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-01 04:33:53.857][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-01 04:33:53.860][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-01 04:33:53.862][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-01 04:33:53.864][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-01 04:33:53.867][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-01 04:33:53.869][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-01 04:33:53.871][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-01 04:33:53.873][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-01 04:33:53.875][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-01 04:33:53.877][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-01 04:33:53.887][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-01 04:33:53.889][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-01 04:33:53.891][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-01 04:33:53.893][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-01 04:33:53.896][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-01 04:33:53.898][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-04-01 04:33:53.899][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:53.901][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.903][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.932][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[2025-04-01 04:33:53.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.960][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[2025-04-01 04:33:53.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:53.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:53.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:53.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:53.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:53.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:53.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:53.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:54.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:54.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:54.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:54.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:54.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:54.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.030][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[2025-04-01 04:33:54.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:54.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:54.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:54.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:54.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:54.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:54.065][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-04-01 04:33:54.067][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:54.070][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:54.071][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-04-01 04:33:54.073][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:54.074][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:54.076][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:54.077][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-04-01 04:33:54.079][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:54.080][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:54.082][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-04-01 04:33:54.083][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:54.084][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:54.086][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-04-01 04:33:54.087][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-04-01 04:33:54.089][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-04-01 04:33:54.090][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:54.092][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:54.092][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-04-01 04:33:54.092][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-04-01 04:33:54.093][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-01 04:33:54.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:54.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:54.097][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:54.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:54.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:54.101][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:54.102][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-04-01 04:33:54.102][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-04-01 04:33:54.104][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:54.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:54.106][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:54.107][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:54.109][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-04-01 04:33:54.111][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-01 04:33:54.114][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-01 04:33:54.116][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-01 04:33:54.118][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-01 04:33:54.123][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:54.124][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-04-01 04:33:54.126][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:54.128][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-04-01 04:33:54.129][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:54.131][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:54.133][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-04-01 04:33:54.134][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-04-01 04:33:54.135][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-04-01 04:33:54.135][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-04-01 04:33:54.137][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:54.138][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:54.139][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-04-01 04:33:54.141][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-04-01 04:33:54.142][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:54.144][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-04-01 04:33:54.146][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:54.147][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:54.149][private$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[2025-04-01 04:33:54.151][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:54.152][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-04-01 04:33:54.154][biodb::testThat]
biodb.INFO [2025-04-01 04:33:54.155][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-04-01 04:33:54.157][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:54.158][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:54.163][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:54.166][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:54.167][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:54.169][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:54.171][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:54.173][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:54.174][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:54.175][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:54.177][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:54.180][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-04-01 04:33:54.196][biodb::testThat]
biodb.INFO [2025-04-01 04:33:54.197][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-04-01 04:33:54.199][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:54.200][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:54.203][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-04-01 04:33:54.204][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-04-01 04:33:54.206][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:54.208][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-04-01 04:33:54.211][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-04-01 04:33:54.212][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-01 04:33:54.216][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-04-01 04:33:54.217][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-04-01 04:33:54.219][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-04-01 04:33:54.221][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-04-01 04:33:54.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:54.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:54.241][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.243][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.246][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.255][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.256][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.259][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.261][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.268][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.269][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.272][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.274][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.288][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.290][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.293][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.296][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.302][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.307][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.317][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.318][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.322][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.331][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.333][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.336][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.345][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.347][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.350][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.352][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.359][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.360][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.363][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.365][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.388][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.391][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.394][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.397][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.403][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:54.405][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:54.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.408][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:54.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:54.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:54.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:54.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.420][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:54.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:54.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.429][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.430][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.433][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.441][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.443][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.445][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.453][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.455][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.458][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.466][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:54.467][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:54.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.470][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.472][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:54.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:54.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:54.479][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:54.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.482][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:54.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:54.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.489][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:54.491][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.494][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.495][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:54.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.517][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.523][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.528][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:54.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.534][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.540][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.554][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:54.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:54.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:54.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.594][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.600][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.606][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:54.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.611][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.617][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.622][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:54.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.628][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.634][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.640][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:54.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.646][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:54.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:54.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.652][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:54.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:54.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.658][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:54.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:54.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.663][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:54.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:54.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.669][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:54.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:54.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.675][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:54.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:54.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.680][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:54.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:54.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:54.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:54.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:54.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:54.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.723][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.728][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.734][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:54.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:54.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.757][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.768][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.773][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.779][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.784][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:54.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.790][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.795][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.801][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:54.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:54.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:54.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:54.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:54.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.819][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:54.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:54.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.825][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:54.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.850][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:54.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:54.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:54.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:54.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.895][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:54.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:54.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.901][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:54.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:54.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.913][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:54.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:54.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:54.954][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-04-01 04:33:54.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:54.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:54.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:54.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:54.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-04-01 04:33:54.981][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-01 04:33:54.983][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-04-01 04:33:54.985][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-04-01 04:33:54.986][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-01 04:33:54.987][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:54.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:54.990][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:54.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:54.992][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:54.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-04-01 04:33:54.998][biodb::testContext]
biodb.INFO [2025-04-01 04:33:55.000][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:55.001][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-04-01 04:33:55.003][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-01 04:33:55.004][biodb::testContext]
biodb.INFO [2025-04-01 04:33:55.009][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-04-01 04:33:55.012][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-04-01 04:33:55.025][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:55.027][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-01 04:33:55.029][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-01 04:33:55.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.034][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-01 04:33:55.036][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-01 04:33:55.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.042][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-01 04:33:55.043][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-01 04:33:55.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.047][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[2025-04-01 04:33:55.049][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-01 04:33:55.050][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-01 04:33:55.052][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-01 04:33:55.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.057][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-01 04:33:55.058][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-01 04:33:55.060][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-01 04:33:55.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.064][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[2025-04-01 04:33:55.065][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-01 04:33:55.067][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-01 04:33:55.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.072][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-01 04:33:55.074][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-01 04:33:55.075][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-01 04:33:55.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.080][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-01 04:33:55.082][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-01 04:33:55.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.087][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-01 04:33:55.089][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-01 04:33:55.090][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-01 04:33:55.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.096][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-01 04:33:55.098][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-01 04:33:55.099][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-01 04:33:55.100][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-01 04:33:55.102][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-01 04:33:55.103][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-01 04:33:55.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.109][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-01 04:33:55.110][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-01 04:33:55.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.116][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-01 04:33:55.117][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-01 04:33:55.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.122][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-01 04:33:55.124][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-01 04:33:55.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.129][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-01 04:33:55.131][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-01 04:33:55.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.136][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-01 04:33:55.138][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-01 04:33:55.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.143][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-01 04:33:55.144][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-01 04:33:55.149][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-01 04:33:55.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.155][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-01 04:33:55.156][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-01 04:33:55.158][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-01 04:33:55.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.163][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-01 04:33:55.166][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.167][self$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[2025-04-01 04:33:55.169][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.170][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:55.172][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.173][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.175][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.184][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.186][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-01 04:33:55.188][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:55.189][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.191][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-01 04:33:55.192][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:55.194][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.195][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.197][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:55.197][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-01 04:33:55.197][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-01 04:33:55.197][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-01 04:33:55.197][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-01 04:33:55.198][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:55.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.201][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.202][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:55.204][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.205][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.206][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.208][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.209][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:55.210][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:55.212][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.213][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.215][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-01 04:33:55.217][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.219][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-01 04:33:55.220][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.222][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:55.223][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.225][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.226][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.228][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.229][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-01 04:33:55.230][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:55.232][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.233][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-01 04:33:55.235][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:55.236][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.238][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.239][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:55.239][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-01 04:33:55.239][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-01 04:33:55.239][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-01 04:33:55.239][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-01 04:33:55.240][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:55.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.245][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:55.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.248][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.250][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.251][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:55.252][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:55.254][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.255][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.257][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-01 04:33:55.259][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.261][self$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[2025-04-01 04:33:55.262][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.264][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:55.265][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.267][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.268][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.269][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.271][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-01 04:33:55.272][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:55.274][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.275][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-01 04:33:55.277][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:55.278][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.280][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.281][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.283][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:55.284][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.285][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.287][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:55.288][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.290][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.291][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.293][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.294][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:55.295][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:55.297][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.298][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.300][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-01 04:33:55.302][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.304][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-01 04:33:55.305][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.307][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:55.308][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.310][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.311][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.313][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.314][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-01 04:33:55.316][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:55.317][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.319][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-01 04:33:55.320][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:55.322][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.323][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.324][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.326][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-01 04:33:55.327][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.336][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.338][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:55.340][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.343][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.344][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.345][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:55.347][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:55.348][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.349][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.351][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:55.352][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.393][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[2025-04-01 04:33:55.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.426][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.DEBUG[2025-04-01 04:33:55.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.446][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[2025-04-01 04:33:55.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.469][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-01 04:33:55.471][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-01 04:33:55.473][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-01 04:33:55.475][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-01 04:33:55.478][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-01 04:33:55.480][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-01 04:33:55.482][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-01 04:33:55.492][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-01 04:33:55.495][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-01 04:33:55.498][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-01 04:33:55.500][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-01 04:33:55.502][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-01 04:33:55.504][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-01 04:33:55.506][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-01 04:33:55.508][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-01 04:33:55.510][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-01 04:33:55.512][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-01 04:33:55.514][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-01 04:33:55.516][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-01 04:33:55.518][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-01 04:33:55.520][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-01 04:33:55.522][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-01 04:33:55.524][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-01 04:33:55.526][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-01 04:33:55.528][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-01 04:33:55.530][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-01 04:33:55.532][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-01 04:33:55.534][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-01 04:33:55.536][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-01 04:33:55.538][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-01 04:33:55.540][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-01 04:33:55.542][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-01 04:33:55.544][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-01 04:33:55.546][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-01 04:33:55.548][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-01 04:33:55.550][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-01 04:33:55.552][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-01 04:33:55.554][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-01 04:33:55.556][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-01 04:33:55.558][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-01 04:33:55.560][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-01 04:33:55.562][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-01 04:33:55.564][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-01 04:33:55.566][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-01 04:33:55.568][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-01 04:33:55.570][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-01 04:33:55.572][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-01 04:33:55.574][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-01 04:33:55.576][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-01 04:33:55.578][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-01 04:33:55.580][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-01 04:33:55.582][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-01 04:33:55.584][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-01 04:33:55.586][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-01 04:33:55.588][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-01 04:33:55.590][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-01 04:33:55.592][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-01 04:33:55.594][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-01 04:33:55.596][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-01 04:33:55.598][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-01 04:33:55.600][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-01 04:33:55.602][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-01 04:33:55.604][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-01 04:33:55.606][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-01 04:33:55.608][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-01 04:33:55.610][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-01 04:33:55.613][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-01 04:33:55.615][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-01 04:33:55.617][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-01 04:33:55.619][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-01 04:33:55.621][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-01 04:33:55.623][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-01 04:33:55.626][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-01 04:33:55.628][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-01 04:33:55.630][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-01 04:33:55.632][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-01 04:33:55.634][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-01 04:33:55.645][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-01 04:33:55.648][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-01 04:33:55.650][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-01 04:33:55.652][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-01 04:33:55.654][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-01 04:33:55.656][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-01 04:33:55.659][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-01 04:33:55.661][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-04-01 04:33:55.662][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-01 04:33:55.664][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.666][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.734][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[2025-04-01 04:33:55.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-01 04:33:55.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:55.836][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-04-01 04:33:55.838][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:55.841][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.842][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.844][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.845][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-01 04:33:55.846][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.848][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-04-01 04:33:55.849][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.851][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.852][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-04-01 04:33:55.853][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-01 04:33:55.855][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.856][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-04-01 04:33:55.857][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-04-01 04:33:55.859][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-04-01 04:33:55.860][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-01 04:33:55.862][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-01 04:33:55.862][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-04-01 04:33:55.862][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-04-01 04:33:55.863][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-01 04:33:55.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.867][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-01 04:33:55.868][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-01 04:33:55.870][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-01 04:33:55.871][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-01 04:33:55.872][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-04-01 04:33:55.872][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-04-01 04:33:55.874][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:55.875][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:55.876][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-01 04:33:55.878][self$setPropertyValue]
biodb.DEBUG[2025-04-01 04:33:55.879][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-04-01 04:33:55.882][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-01 04:33:55.884][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-01 04:33:55.886][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-01 04:33:55.888][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-01 04:33:55.893][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:55.894][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-04-01 04:33:55.896][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:55.898][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-04-01 04:33:55.899][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:55.901][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:55.903][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-04-01 04:33:55.904][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-04-01 04:33:55.905][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-04-01 04:33:55.905][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-04-01 04:33:55.907][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-01 04:33:55.908][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-01 04:33:55.909][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-04-01 04:33:55.910][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-04-01 04:33:55.912][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-04-01 04:33:55.914][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-04-01 04:33:55.916][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:55.917][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:55.919][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.3/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-04-01 04:33:55.921][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-01 04:33:55.922][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-04-01 04:33:55.924][biodb::testThat]
biodb.INFO [2025-04-01 04:33:55.925][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-04-01 04:33:55.927][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-01 04:33:55.928][biodb::testThat]
biodb.DEBUG[2025-04-01 04:33:55.931][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-04-01 04:33:55.932][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-04-01 04:33:55.934][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-04-01 04:33:55.938][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:55.948][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:55.950][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:55.952][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:55.953][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:55.955][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:55.957][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:55.958][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:55.959][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:55.961][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-04-01 04:33:55.962][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-04-01 04:33:55.964][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-04-01 04:33:55.966][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-04-01 04:33:55.968][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:55.970][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-04-01 04:33:55.973][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-04-01 04:33:55.974][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-01 04:33:55.977][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-04-01 04:33:55.978][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-04-01 04:33:55.980][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-04-01 04:33:55.982][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-04-01 04:33:55.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:55.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:55.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:55.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:55.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:55.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:55.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:56.002][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.004][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.006][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.014][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.015][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.018][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.020][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.026][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.028][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.031][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.032][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.038][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.040][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.043][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.045][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.052][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.055][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.062][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.064][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.066][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.074][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.076][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.078][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.080][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.086][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.087][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.090][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.092][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.106][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.107][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.110][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.112][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.118][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.119][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.122][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.124][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.130][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:56.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:56.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.134][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:56.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:56.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.141][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:56.143][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:56.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.145][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:56.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:56.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.157][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.165][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.166][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.169][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.177][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.179][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.182][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.183][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.189][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.190][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.193][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.195][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.201][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:56.202][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:56.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.205][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:56.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:56.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.213][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:56.214][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.217][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.219][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:56.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.242][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.260][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.267][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.272][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.278][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.283][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.322][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.328][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.333][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.339][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.345][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.351][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.356][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.362][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.368][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.373][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.379][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.385][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:56.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:56.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:56.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:56.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:56.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:56.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:56.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:56.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:56.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:56.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:56.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:56.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.448][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.454][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.460][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.499][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.504][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.510][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.516][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.522][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.528][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.534][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:56.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:56.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.540][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:56.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:56.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.545][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:56.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:56.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.551][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:56.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.582][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:56.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.619][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:56.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:56.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.625][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:56.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:56.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.637][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:56.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:56.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:56.678][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-04-01 04:33:56.679][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.685][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.691][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.697][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:56.703][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:56.704][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-04-01 04:33:56.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:56.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:56.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:56.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:56.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:56.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:56.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:56.727][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-04-01 04:33:56.729][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-04-01 04:33:56.731][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:56.733][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-04-01 04:33:56.736][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-04-01 04:33:56.738][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-04-01 04:33:56.740][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-04-01 04:33:56.741][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-04-01 04:33:56.743][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-04-01 04:33:56.745][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-04-01 04:33:56.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:56.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:56.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:56.755][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:56.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:56.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:56.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:56.763][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.768][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.775][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.777][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.780][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.781][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:56.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.787][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.789][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.791][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.793][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:56.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.799][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.800][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.803][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:56.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.810][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.815][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:56.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.822][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.824][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.826][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:56.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.834][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.835][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.838][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.840][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:56.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.846][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.847][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.850][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.852][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:56.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.858][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.860][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.863][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.865][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:56.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.871][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.872][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.883][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.885][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:56.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.892][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:56.893][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:56.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.896][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.898][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:56.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:56.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.903][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:56.905][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:56.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.907][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:56.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:56.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.915][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.916][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.919][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:56.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.927][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.928][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.931][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:56.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.939][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.943][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.945][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:56.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:56.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.951][ef$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.952][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.955][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.957][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:56.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:56.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:56.964][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:56.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.967][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:56.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:56.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.975][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:56.976][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.979][ef$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.981][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-04-01 04:33:56.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:56.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:56.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:56.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:56.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:56.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.004][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:57.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:57.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.009][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:57.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:57.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.015][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-04-01 04:33:57.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-04-01 04:33:57.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.021][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:57.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:57.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.026][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:57.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:57.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.040][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-01 04:33:57.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-01 04:33:57.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:57.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:57.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:57.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:57.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-04-01 04:33:57.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-04-01 04:33:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:57.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:57.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:57.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:57.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:57.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-04-01 04:33:57.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.080][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:57.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:57.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.086][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:57.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:57.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.091][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:57.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-04-01 04:33:57.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.097][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:57.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:57.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.102][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:57.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:57.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.108][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:57.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-04-01 04:33:57.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.113][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:57.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:57.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.119][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:57.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:57.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:57.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-04-01 04:33:57.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.131][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.136][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.142][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:57.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:57.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.154][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:57.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:57.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.160][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-01 04:33:57.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-01 04:33:57.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:57.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:57.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:57.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:57.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-01 04:33:57.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-01 04:33:57.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.209][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:57.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:57.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.215][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:57.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:57.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.221][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:57.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-04-01 04:33:57.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:57.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:57.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:57.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:57.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:57.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-04-01 04:33:57.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.261][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:57.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:57.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.267][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:57.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:57.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.272][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:57.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-04-01 04:33:57.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.278][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:57.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:57.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.283][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:57.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:57.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.289][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:57.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-04-01 04:33:57.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:57.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:57.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.300][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:57.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:57.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.306][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-04-01 04:33:57.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-04-01 04:33:57.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.311][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:57.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.333][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-04-01 04:33:57.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-01 04:33:57.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-01 04:33:57.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-01 04:33:57.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.374][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:57.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:57.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.379][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:57.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:57.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.390][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:57.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-04-01 04:33:57.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-01 04:33:57.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-01 04:33:57.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:57.427][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-04-01 04:33:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.437][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.442][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.448][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:57.453][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:57.454][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:57.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:57.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:57.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:57.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:57.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:57.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:57.468][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[2025-04-01 04:33:57.517][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-04-01 04:33:57.518][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-04-01 04:33:57.520][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-04-01 04:33:57.522][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:57.524][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:57.526][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:57.527][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:57.529][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:57.531][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:57.532][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:57.533][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:57.534][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:57.536][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-04-01 04:33:57.537][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-04-01 04:33:57.539][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.545][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.550][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.555][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.561][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.566][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.571][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:57.577][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:57.578][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-04-01 04:33:57.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:57.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:57.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:57.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:57.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:57.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:57.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-01 04:33:57.593][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.598][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.604][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.609][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.615][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.620][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.633][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:57.639][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-04-01 04:33:57.640][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-04-01 04:33:57.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:57.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:57.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:57.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:57.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:57.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:57.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-01 04:33:57.659][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-04-01 04:33:57.661][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-04-01 04:33:57.662][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-04-01 04:33:57.664][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:57.666][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:57.668][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-04-01 04:33:57.670][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-04-01 04:33:57.671][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-04-01 04:33:57.673][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-04-01 04:33:57.674][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-04-01 04:33:57.675][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-04-01 04:33:57.676][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-04-01 04:33:57.678][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-04-01 04:33:57.679][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-04-01 04:33:57.681][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.687][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.692][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.698][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.708][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.714][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:57.719][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-04-01 04:33:57.720][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-04-01 04:33:57.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:57.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:57.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:57.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:57.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:57.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:57.734][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.TRACE[2025-04-01 04:33:57.735][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.741][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.746][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.752][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.757][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.762][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-01 04:33:57.768][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-04-01 04:33:57.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-04-01 04:33:57.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-01 04:33:57.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-01 04:33:57.782][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-04-01 04:33:57.783][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-04-01 04:33:57.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-01 04:33:57.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:57.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:57.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:57.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:57.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:57.797][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.INFO [2025-04-01 04:33:57.806][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-01 04:33:57.808][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-04-01 04:33:57.815][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-04-01 04:33:57.817][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-01 04:33:57.818][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-01 04:33:57.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-01 04:33:57.821][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-01 04:33:57.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-01 04:33:57.824][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-01 04:33:57.825][FUN] Functions in observer 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 
 12.044   0.468  55.393

Example timings