Back to Multiple platform build/check report for BioC 3.20:   simplified   long
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This page was generated on 2025-02-03 12:11 -0500 (Mon, 03 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4746
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4494
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4517
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4469
taishanLinux (openEuler 24.03 LTS)aarch644.4.2 (2024-10-31) -- "Pile of Leaves" 4400
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 204/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-01-30 13:00 -0500 (Thu, 30 Jan 2025)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_20
git_last_commit: 0eb718c
git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    ERROR    OK  
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    WARNINGS  

CHECK results for biodbHmdb on taishan

To the developers/maintainers of the biodbHmdb package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: biodbHmdb
Version: 1.12.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz
StartedAt: 2025-01-31 04:13:46 -0000 (Fri, 31 Jan 2025)
EndedAt: 2025-01-31 04:15:57 -0000 (Fri, 31 Jan 2025)
EllapsedTime: 131.0 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 4.4.2 (2024-10-31)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 12.3.1 (openEuler 12.3.1-36.oe2403)
* 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-4.4.2/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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/include" -DNDEBUG  -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include    -fPIC  -g -O2  -Wall -Werror=format-security  -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/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/lib -lR
installing to /home/biocbuild/R/R-4.4.2/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 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 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 [2025-01-31 04:14:30.181][biodb::testContext]
biodb.INFO [2025-01-31 04:14:30.184][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:30.190][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-31 04:14:30.191][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:30.192][biodb::testContext]
biodb.INFO [2025-01-31 04:14:30.199][biodb::testThat]
biodb.INFO [2025-01-31 04:14:30.200][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-31 04:14:30.205][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:30.207][biodb::testThat]
biodb.INFO [2025-01-31 04:14:30.479][biodb::testContext]
biodb.INFO [2025-01-31 04:14:30.480][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:30.486][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-31 04:14:30.487][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:30.488][biodb::testContext]
biodb.INFO [2025-01-31 04:14:30.510][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 04:14:30.517][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 04:14:30.531][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:30.537][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 04:14:30.539][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 04:14:30.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.548][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 04:14:30.625][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 04:14:30.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.635][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 04:14:30.636][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 04:14:30.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.649][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 04:14:30.651][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 04:14:30.652][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 04:14:30.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.665][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 04:14:30.667][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 04:14:30.668][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 04:14:30.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.681][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 04:14:30.683][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 04:14:30.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.692][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 04:14:30.698][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 04:14:30.699][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 04:14:30.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.713][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 04:14:30.714][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 04:14:30.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.724][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 04:14:30.729][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 04:14:30.731][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 04:14:30.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.740][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 04:14:30.746][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 04:14:30.747][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 04:14:30.753][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 04:14:30.754][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 04:14:30.756][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 04:14:30.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.769][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 04:14:30.771][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 04:14:30.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.780][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 04:14:30.786][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 04:14:30.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.795][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 04:14:30.801][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 04:14:30.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.810][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 04:14:30.812][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 04:14:30.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.825][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 04:14:30.827][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 04:14:30.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.840][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 04:14:30.842][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 04:14:30.858][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 04:14:30.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.868][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 04:14:30.874][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 04:14:30.875][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 04:14:30.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:30.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:30.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:30.896][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 04:14:30.994][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.042][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-31 04:14:31.044][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.049][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:31.051][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.056][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.058][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.059][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.065][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 04:14:31.066][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:31.068][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.073][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 04:14:31.075][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:31.080][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.082][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.083][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:31.083][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 04:14:31.083][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 04:14:31.083][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 04:14:31.083][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 04:14:31.089][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:31.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.092][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.098][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:31.099][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.106][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.108][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.113][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:31.115][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:31.116][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.122][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.124][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 04:14:31.131][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.165][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 04:14:31.168][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.178][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:31.180][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.186][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.187][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.193][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.195][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 04:14:31.201][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:31.203][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.209][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 04:14:31.211][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:31.216][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.218][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.220][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:31.220][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 04:14:31.220][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 04:14:31.220][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 04:14:31.220][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 04:14:31.226][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:31.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.234][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.236][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:31.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.249][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.251][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.257][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:31.258][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:31.260][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.266][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.268][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 04:14:31.276][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.282][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-31 04:14:31.284][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.289][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:31.291][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.298][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.304][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.306][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.308][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 04:14:31.314][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:31.316][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.322][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 04:14:31.324][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:31.330][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.332][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.337][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.339][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:31.345][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.348][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:31.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.361][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.363][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.369][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:31.371][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:31.376][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.378][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.380][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 04:14:31.388][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.394][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 04:14:31.395][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.401][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:31.403][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.409][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.411][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.417][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.419][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 04:14:31.425][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:31.427][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.433][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 04:14:31.435][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:31.441][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.443][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:31.448][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.450][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:31.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.459][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:31.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:31.467][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:31.473][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:31.475][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.476][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:31.482][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:31.484][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:31.490][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:31.500][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:31.506][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.572][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[2025-01-31 04:14:31.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.608][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[2025-01-31 04:14:31.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.772][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[2025-01-31 04:14:31.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:31.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:31.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:31.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:31.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:31.793][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 04:14:31.804][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 04:14:31.811][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 04:14:31.817][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 04:14:31.819][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 04:14:31.849][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 04:14:31.851][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 04:14:31.857][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 04:14:31.859][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 04:14:31.866][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 04:14:31.868][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 04:14:31.874][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 04:14:31.876][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 04:14:31.882][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 04:14:31.889][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 04:14:31.891][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 04:14:31.897][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 04:14:31.899][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 04:14:31.905][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 04:14:31.908][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 04:14:31.914][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 04:14:31.916][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 04:14:31.922][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 04:14:31.928][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 04:14:31.931][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 04:14:31.937][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 04:14:31.939][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 04:14:31.945][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 04:14:31.947][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 04:14:31.954][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 04:14:31.956][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 04:14:31.962][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 04:14:31.964][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 04:14:31.970][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 04:14:31.976][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 04:14:31.979][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 04:14:31.985][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 04:14:31.987][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 04:14:31.994][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 04:14:31.996][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 04:14:32.002][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 04:14:32.004][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 04:14:32.011][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 04:14:32.017][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 04:14:32.019][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 04:14:32.025][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 04:14:32.028][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 04:14:32.034][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 04:14:32.036][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 04:14:32.043][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 04:14:32.049][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 04:14:32.052][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 04:14:32.058][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 04:14:32.065][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 04:14:32.067][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 04:14:32.073][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 04:14:32.075][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 04:14:32.082][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 04:14:32.084][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 04:14:32.090][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 04:14:32.096][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 04:14:32.099][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 04:14:32.105][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 04:14:32.107][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 04:14:32.113][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 04:14:32.116][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 04:14:32.122][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 04:14:32.124][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 04:14:32.130][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 04:14:32.136][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 04:14:32.139][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 04:14:32.145][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 04:14:32.147][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 04:14:32.153][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 04:14:32.155][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 04:14:32.162][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 04:14:32.164][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 04:14:32.170][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 04:14:32.176][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 04:14:32.179][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 04:14:32.185][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 04:14:32.187][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 04:14:32.194][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 04:14:32.211][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 04:14:32.218][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 04:14:32.226][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:32.228][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.235][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.290][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[2025-01-31 04:14:32.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.340][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[2025-01-31 04:14:32.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:32.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:32.491][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 04:14:32.505][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:32.509][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:32.510][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 04:14:32.512][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:32.514][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:32.515][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:32.517][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 04:14:32.519][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:32.521][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:32.522][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 04:14:32.524][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:32.525][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:32.527][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 04:14:32.528][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 04:14:32.530][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 04:14:32.531][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:32.533][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:32.533][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 04:14:32.533][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 04:14:32.534][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 04:14:32.536][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:32.537][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:32.538][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:32.540][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:32.541][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:32.542][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:32.544][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 04:14:32.544][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 04:14:32.545][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:32.546][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:32.548][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:32.549][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:32.558][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 04:14:32.560][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 04:14:32.562][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 04:14:32.565][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 04:14:32.567][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 04:14:32.596][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:32.598][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 04:14:32.603][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:32.608][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:32.621][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:32.623][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:32.629][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 04:14:32.630][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 04:14:32.632][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 04:14:32.632][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 04:14:32.638][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:32.639][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:32.640][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 04:14:32.645][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 04:14:32.647][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:32.718][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:32.720][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:32.726][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:32.728][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:32.733][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:32.735][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 04:14:32.754][biodb::testThat]
biodb.INFO [2025-01-31 04:14:32.755][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-31 04:14:32.761][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:32.762][biodb::testThat]
biodb.TRACE[2025-01-31 04:14:32.778][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-01-31 04:14:32.780][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 04:14:32.793][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 04:14:32.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:32.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:32.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:32.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:32.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:32.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:32.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:14:32.868][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:32.873][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:32.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:32.876][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:32.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:32.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:32.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:32.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:32.931][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:32.937][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:32.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:32.939][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.024][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:33.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:33.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.035][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.036][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.043][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.049][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.059][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.065][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.068][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.074][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.084][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.089][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.092][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.113][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.114][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.121][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.138][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:33.140][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:33.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.147][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.153][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:33.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:33.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.163][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:33.169][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:33.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.171][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.195][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:33.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:33.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.210][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.212][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.219][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.225][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.236][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.242][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.249][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.251][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.266][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:33.268][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:33.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.275][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:33.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:33.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.292][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:33.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:33.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.305][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:33.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:33.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.322][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:33.324][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:33.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.331][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:33.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:33.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.353][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:33.355][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:33.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.362][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:33.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:33.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.379][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:33.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:33.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.388][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:33.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:33.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.409][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:33.410][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:33.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.417][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.419][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:33.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:33.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.434][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:33.436][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:33.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.443][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:33.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:33.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.460][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:33.466][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.473][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.475][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:33.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:33.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:33.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:33.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:33.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:33.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:33.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.633][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.659][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.673][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:33.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.684][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.698][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.713][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:33.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:33.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:33.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.803][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.817][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.827][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.857][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:33.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.882][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.897][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.908][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:33.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:33.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:33.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:33.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:33.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:33.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:33.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:33.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:33.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:33.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:33.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:33.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:33.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:33.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:34.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:34.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:34.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:34.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:34.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.043][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.083][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:34.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:34.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:34.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:34.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.114][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:34.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:34.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:34.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:34.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:34.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:34.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:34.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:34.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.218][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:34.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:34.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.228][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:34.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:34.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.242][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:34.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:34.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.252][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.266][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.280][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:34.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:34.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:34.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.315][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:34.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.330][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:34.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.377][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:34.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:34.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.475][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.489][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:34.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:34.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.499][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.514][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.537][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:34.633][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 04:14:34.641][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 04:14:34.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 04:14:34.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.650][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 04:14:34.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 04:14:34.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.660][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 04:14:34.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 04:14:34.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.674][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 04:14:34.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 04:14:34.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.748][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.851][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.865][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.875][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:34.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.945][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.946][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.953][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:34.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:34.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:34.988][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:34.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.002][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.012][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.042][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.044][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.051][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.056][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:35.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.124][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.130][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.137][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:35.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.172][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.187][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.201][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.211][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.217][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.220][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.226][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:35.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.308][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:35.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.348][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.378][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.395][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.403][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:35.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:35.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:35.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:35.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:35.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:35.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:35.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.485][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:35.487][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:35.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.509][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:35.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:35.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.544][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:35.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:35.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.558][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:35.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:35.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.572][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:35.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:35.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.583][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:35.589][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:35.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.591][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.597][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:35.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:35.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.631][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:35.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:35.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.646][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:35.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:35.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.656][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:35.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:35.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.671][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:35.677][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:35.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.680][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:35.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:35.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.720][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.735][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.750][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.760][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.766][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.773][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.775][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:35.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.856][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:35.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.896][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.911][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.935][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.941][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.949][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:35.951][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:35.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:35.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.030][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.040][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.045][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.048][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.088][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.102][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.112][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.127][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.128][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.135][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.141][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.174][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:36.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:36.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.184][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:36.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:36.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:36.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:36.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.208][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:36.214][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:36.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.216][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:36.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:36.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:36.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:36.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:36.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:36.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:36.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:36.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.288][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:36.294][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:36.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.301][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:36.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.372][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.374][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.381][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.430][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.440][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.454][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.464][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.470][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.476][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.478][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.511][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:36.517][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:36.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.520][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.535][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:36.536][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:36.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.543][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.558][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.560][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:36.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.567][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:36.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:36.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.590][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.605][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:36.606][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:36.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.613][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.624][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.630][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:36.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.637][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.647][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.653][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:36.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.656][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.671][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:36.677][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:36.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.680][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.694][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:36.696][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:36.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.703][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.718][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:36.720][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:36.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.727][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:36.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:36.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.750][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.765][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.767][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:36.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.773][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.788][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:36.790][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:36.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.797][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.808][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:36.814][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:36.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.820][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.831][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:36.837][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:36.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.840][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.870][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:36.872][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:36.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.879][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.893][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:36.895][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:36.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.900][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:36.906][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:36.908][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:36.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:36.911][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 04:14:36.926][biodb::testThat]
biodb.INFO [2025-01-31 04:14:36.927][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-31 04:14:36.933][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:36.934][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:36.976][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-31 04:14:36.997][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 04:14:37.021][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:37.023][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 04:14:37.026][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 04:14:37.028][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 04:14:37.038][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-31 04:14:37.039][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 04:14:37.108][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 04:14:37.114][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 04:14:37.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:37.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:37.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:37.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:37.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:37.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:37.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:14:37.155][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:37.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:37.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.164][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:37.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:37.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.180][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:37.185][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:37.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.188][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.194][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:37.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.204][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.210][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.217][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.220][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.234][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.236][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.243][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.249][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.260][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.266][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.291][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.313][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.314][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.321][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.338][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:37.340][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:37.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.347][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.353][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:37.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:37.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.363][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:37.364][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:37.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.371][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.377][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:37.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:37.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.387][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.388][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.395][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.401][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.411][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.417][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.419][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.425][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.435][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:37.441][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:37.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.444][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.450][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:37.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:37.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.459][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:37.465][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:37.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.468][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.474][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:37.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:37.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.483][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:37.489][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:37.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.492][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:37.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:37.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.508][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:37.513][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:37.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.516][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:37.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:37.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.532][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:37.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:37.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.545][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.546][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:37.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:37.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.560][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:37.562][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:37.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.569][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.571][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:37.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:37.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.585][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:37.586][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:37.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.593][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.595][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:37.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:37.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.609][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:37.610][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.617][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.619][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:37.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:37.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:37.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:37.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:37.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.667][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.690][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:37.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.715][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.729][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.738][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:37.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:37.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.817][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.827][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:37.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.860][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:37.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.897][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:37.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.916][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:37.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.929][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:37.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:37.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.939][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:37.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:37.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:37.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:37.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:37.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:37.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:37.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:37.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:37.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:37.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:37.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:37.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:38.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.065][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:38.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.075][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:38.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:38.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.088][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:38.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:38.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:38.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:38.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:38.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:38.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:38.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:38.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.184][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:38.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:38.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.198][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:38.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:38.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.207][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:38.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:38.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.221][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.231][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.245][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.255][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:38.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:38.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:38.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:38.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:38.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:38.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.293][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:38.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.328][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:38.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:38.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.373][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:38.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.379][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:38.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:38.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:38.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.390][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:38.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:38.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:38.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:38.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:38.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:38.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:38.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:38.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:38.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:38.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:38.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:38.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:38.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:38.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.436][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 04:14:38.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-31 04:14:38.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-31 04:14:38.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-31 04:14:38.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-31 04:14:38.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-31 04:14:38.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-31 04:14:38.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 04:14:38.462][biodb::testThat]
biodb.INFO [2025-01-31 04:14:38.463][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-31 04:14:38.465][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:38.466][biodb::testThat]
biodb.TRACE[2025-01-31 04:14:38.470][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.472][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.474][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.476][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-31 04:14:38.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.518][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.532][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-31 04:14:38.534][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-31 04:14:38.535][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 04:14:38.537][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 04:14:38.539][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.541][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.543][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:38.544][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.546][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:38.547][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:38.550][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:38.552][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:38.553][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:38.555][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 04:14:38.556][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 04:14:38.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.582][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:14:38.584][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 04:14:38.585][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 04:14:38.600][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.602][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.605][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.606][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-31 04:14:38.629][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.635][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.640][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.649][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2025-01-31 04:14:38.726][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 04:14:38.727][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-31 04:14:38.729][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-31 04:14:38.756][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.759][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.761][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:38.763][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.764][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:38.790][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:38.791][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:38.793][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:38.794][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:38.813][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 04:14:38.814][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 04:14:38.817][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.823][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.829][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.835][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:38.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.840][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:14:38.842][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 04:14:38.843][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 04:14:38.860][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.862][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.864][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.866][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-31 04:14:38.882][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.889][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.894][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.904][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-31 04:14:38.906][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-31 04:14:38.907][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-31 04:14:38.909][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-31 04:14:38.911][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.913][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.915][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:38.917][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:38.918][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:38.920][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:38.922][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:38.923][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:38.924][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:38.926][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 04:14:38.927][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 04:14:38.930][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.936][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.941][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:38.947][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:38.953][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:14:38.954][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 04:14:38.956][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-31 04:14:38.975][biodb::testThat]
biodb.INFO [2025-01-31 04:14:38.977][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-31 04:14:38.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:38.979][biodb::testThat]
biodb.TRACE[2025-01-31 04:14:38.994][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:38.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:38.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:38.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:39.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:39.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:39.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:39.031][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-31 04:14:39.032][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 04:14:39.033][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 04:14:39.036][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:39.038][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:39.039][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:39.041][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:39.042][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:39.044][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:39.046][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:39.047][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:39.048][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:39.049][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 04:14:39.051][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 04:14:39.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:39.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:39.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:39.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:39.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:39.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:39.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:39.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:39.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:39.075][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:14:39.076][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-31 04:14:39.096][biodb::testThat]
biodb.INFO [2025-01-31 04:14:39.097][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-31 04:14:39.098][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:39.100][biodb::testThat]
biodb.TRACE[2025-01-31 04:14:39.128][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.134][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.139][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 04:14:39.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 04:14:39.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.144][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 04:14:39.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 04:14:39.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.222][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 04:14:39.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.228][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 04:14:39.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 04:14:39.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:39.233][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 04:14:39.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 04:14:39.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:39.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 04:14:39.247][biodb::testThat]
biodb.INFO [2025-01-31 04:14:39.249][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-31 04:14:39.250][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:39.251][biodb::testThat]
biodb.INFO [2025-01-31 04:14:39.262][biodb::testThat]
biodb.INFO [2025-01-31 04:14:39.263][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-31 04:14:39.265][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:39.266][biodb::testThat]
biodb.INFO [2025-01-31 04:14:39.277][biodb::testThat]
biodb.INFO [2025-01-31 04:14:39.278][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-31 04:14:39.279][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:39.281][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:39.285][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-31 04:14:45.563][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-31 04:14:46.256][biodb::testThat]
biodb.INFO [2025-01-31 04:14:46.261][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-31 04:14:46.263][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:46.264][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:51.514][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-31 04:14:52.171][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:52.173][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:52.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.175][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.177][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:52.178][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:52.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.182][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.183][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:52.193][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:52.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.196][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 04:14:52.207][biodb::testThat]
biodb.INFO [2025-01-31 04:14:52.216][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-31 04:14:52.218][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:52.220][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:52.230][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-31 04:14:52.410][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 04:14:52.417][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:52.420][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 04:14:52.475][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-31 04:14:52.481][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-31 04:14:52.483][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-31 04:14:52.489][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 04:14:52.491][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:52.498][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 04:14:52.499][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 04:14:52.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:52.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:52.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:52.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:52.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:52.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:52.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:14:52.540][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.555][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:52.723][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-31 04:14:52.724][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-31 04:14:52.773][biodb::testThat]
biodb.INFO [2025-01-31 04:14:52.775][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-31 04:14:52.776][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:52.786][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:52.810][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-31 04:14:52.812][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-31 04:14:52.818][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 04:14:52.820][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:52.823][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 04:14:52.826][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-31 04:14:52.827][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-31 04:14:52.829][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-31 04:14:52.831][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 04:14:52.833][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:52.835][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 04:14:52.837][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 04:14:52.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:52.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:52.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:52.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:52.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:52.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:52.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:14:52.855][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.861][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:52.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:52.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:52.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:52.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:52.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:52.904][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-31 04:14:52.905][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-31 04:14:52.907][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-31 04:14:52.925][biodb::testThat]
biodb.INFO [2025-01-31 04:14:52.927][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-31 04:14:52.929][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:52.930][biodb::testThat]
biodb.INFO [2025-01-31 04:14:52.971][biodb::testThat]
biodb.INFO [2025-01-31 04:14:52.972][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-31 04:14:52.974][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:52.975][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:52.978][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:52.980][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:52.982][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:52.985][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:52.986][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:52.988][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:52.990][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:52.991][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:52.992][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-31 04:14:53.003][biodb::testThat]
biodb.INFO [2025-01-31 04:14:53.005][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-31 04:14:53.006][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:53.008][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:53.011][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:53.013][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:53.016][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:53.018][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:53.019][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:53.021][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:53.023][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:53.024][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:53.025][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-31 04:14:53.038][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:53.039][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:53.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:53.042][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:53.043][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:53.045][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:53.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:53.048][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:53.049][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:53.051][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:53.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:53.054][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 04:14:53.055][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 04:14:53.057][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 04:14:53.068][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 04:14:53.070][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 04:14:53.071][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:53.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:53.074][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.077][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 04:14:53.098][biodb::testContext]
biodb.INFO [2025-01-31 04:14:53.100][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:53.105][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-31 04:14:53.107][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:53.108][biodb::testContext]
biodb.INFO [2025-01-31 04:14:53.121][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 04:14:53.124][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 04:14:53.141][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:53.158][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 04:14:53.160][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 04:14:53.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.174][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 04:14:53.176][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 04:14:53.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.189][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 04:14:53.191][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 04:14:53.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.200][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 04:14:53.206][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 04:14:53.207][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 04:14:53.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.221][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 04:14:53.222][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 04:14:53.224][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 04:14:53.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.237][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 04:14:53.239][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 04:14:53.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.253][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 04:14:53.255][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 04:14:53.261][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 04:14:53.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.271][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 04:14:53.277][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 04:14:53.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.287][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 04:14:53.288][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 04:14:53.294][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 04:14:53.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.303][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 04:14:53.309][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 04:14:53.310][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 04:14:53.312][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 04:14:53.318][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 04:14:53.319][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 04:14:53.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.333][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 04:14:53.334][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 04:14:53.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.344][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 04:14:53.349][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 04:14:53.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.359][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 04:14:53.360][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 04:14:53.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.374][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 04:14:53.375][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 04:14:53.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.390][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 04:14:53.392][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 04:14:53.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.407][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 04:14:53.413][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 04:14:53.430][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 04:14:53.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.436][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 04:14:53.442][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 04:14:53.443][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 04:14:53.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.458][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 04:14:53.465][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.467][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-31 04:14:53.468][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.474][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:53.475][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.481][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.482][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.483][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.489][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 04:14:53.490][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:53.492][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.497][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 04:14:53.499][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:53.510][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.512][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.513][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:53.513][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 04:14:53.513][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 04:14:53.513][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 04:14:53.513][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 04:14:53.515][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:53.517][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.518][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.519][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:53.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.522][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.523][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.525][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.526][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:53.528][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:53.529][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.530][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.532][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 04:14:53.535][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.536][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 04:14:53.538][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.539][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:53.541][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.542][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.543][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.545][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.546][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 04:14:53.548][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:53.549][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.551][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 04:14:53.552][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:53.554][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.555][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.557][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:53.557][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 04:14:53.557][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 04:14:53.557][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 04:14:53.557][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 04:14:53.558][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:53.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.561][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.562][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:53.564][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.565][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.567][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.568][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.570][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:53.571][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:53.573][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.574][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.576][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 04:14:53.579][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.581][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-31 04:14:53.582][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.584][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:53.585][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.587][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.588][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.590][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.591][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 04:14:53.593][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:53.594][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.596][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 04:14:53.597][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:53.599][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.600][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.602][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.603][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:53.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.606][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.607][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:53.609][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.610][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.612][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.613][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.615][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:53.616][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:53.617][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.619][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.621][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 04:14:53.623][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.625][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 04:14:53.627][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.628][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:53.630][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.631][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.633][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.634][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.636][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 04:14:53.638][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:53.639][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.641][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 04:14:53.642][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:53.644][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.645][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:53.647][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.648][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:53.650][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.651][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.653][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:53.654][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:53.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:53.657][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:53.659][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.660][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:53.661][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:53.663][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:53.664][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:53.666][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:53.668][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.677][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[2025-01-31 04:14:53.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.743][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[2025-01-31 04:14:53.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.772][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[2025-01-31 04:14:53.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:53.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:53.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:53.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:53.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:53.817][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 04:14:53.820][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 04:14:53.822][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 04:14:53.824][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 04:14:53.827][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 04:14:53.829][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 04:14:53.832][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 04:14:53.834][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 04:14:53.836][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 04:14:53.839][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 04:14:53.842][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 04:14:53.845][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 04:14:53.847][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 04:14:53.850][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 04:14:53.852][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 04:14:53.855][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 04:14:53.857][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 04:14:53.859][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 04:14:53.862][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 04:14:53.872][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 04:14:53.875][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 04:14:53.877][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 04:14:53.880][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 04:14:53.882][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 04:14:53.884][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 04:14:53.886][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 04:14:53.889][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 04:14:53.891][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 04:14:53.893][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 04:14:53.895][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 04:14:53.897][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 04:14:53.900][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 04:14:53.902][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 04:14:53.904][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 04:14:53.907][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 04:14:53.909][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 04:14:53.911][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 04:14:53.913][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 04:14:53.916][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 04:14:53.918][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 04:14:53.920][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 04:14:53.922][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 04:14:53.925][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 04:14:53.927][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 04:14:53.929][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 04:14:53.931][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 04:14:53.933][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 04:14:53.936][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 04:14:53.938][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 04:14:53.948][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 04:14:53.950][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 04:14:53.952][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 04:14:53.955][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 04:14:53.957][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 04:14:53.959][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 04:14:53.962][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 04:14:53.964][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 04:14:53.966][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 04:14:53.969][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 04:14:53.971][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 04:14:53.973][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 04:14:53.975][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 04:14:53.978][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 04:14:53.980][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 04:14:53.982][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 04:14:53.984][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 04:14:53.987][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 04:14:53.989][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 04:14:53.991][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 04:14:53.993][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 04:14:53.996][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 04:14:53.998][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 04:14:54.000][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 04:14:54.002][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 04:14:54.005][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 04:14:54.007][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 04:14:54.009][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 04:14:54.012][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 04:14:54.014][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 04:14:54.017][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 04:14:54.019][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 04:14:54.022][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 04:14:54.024][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 04:14:54.027][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 04:14:54.029][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 04:14:54.031][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:54.033][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.036][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:54.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:54.241][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 04:14:54.243][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:54.246][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:54.248][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 04:14:54.249][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:54.251][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:54.252][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:54.254][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 04:14:54.255][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:54.256][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:54.258][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 04:14:54.259][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:54.261][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:54.262][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 04:14:54.264][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 04:14:54.265][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 04:14:54.267][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:54.268][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:54.268][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 04:14:54.268][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 04:14:54.270][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 04:14:54.271][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:54.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:54.274][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:54.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:54.277][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:54.279][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:54.280][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 04:14:54.280][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 04:14:54.282][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:54.283][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:54.284][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:54.286][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:54.288][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 04:14:54.290][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 04:14:54.293][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 04:14:54.295][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 04:14:54.298][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 04:14:54.303][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:54.304][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 04:14:54.306][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:54.309][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:54.310][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:54.312][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:54.314][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 04:14:54.316][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 04:14:54.321][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 04:14:54.321][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 04:14:54.323][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:54.329][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:54.331][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 04:14:54.332][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 04:14:54.338][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:54.340][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:54.346][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:54.348][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:54.354][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:54.361][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:54.363][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 04:14:54.369][biodb::testThat]
biodb.INFO [2025-01-31 04:14:54.370][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-31 04:14:54.372][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:54.382][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:54.391][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:54.398][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:54.404][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:54.407][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:54.412][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:54.415][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:54.421][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:54.422][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:54.424][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:54.437][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-31 04:14:54.449][biodb::testThat]
biodb.INFO [2025-01-31 04:14:54.451][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-31 04:14:54.461][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:54.463][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:54.470][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-31 04:14:54.472][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 04:14:54.479][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:54.486][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 04:14:54.493][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-31 04:14:54.495][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 04:14:54.508][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-31 04:14:54.510][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 04:14:54.512][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 04:14:54.518][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 04:14:54.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:54.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:54.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:54.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:54.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:54.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:54.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:14:54.589][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:54.591][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:54.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.598][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:54.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:54.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.615][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:54.621][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:54.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.629][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.631][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:54.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:54.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.647][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:54.653][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:54.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.656][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.662][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:54.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:54.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.678][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:54.680][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:54.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.686][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.694][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:54.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:54.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:54.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:54.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.715][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:54.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:54.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.738][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:54.739][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:54.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.747][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:54.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:54.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.769][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:54.770][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:54.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.778][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.780][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:54.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:54.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.792][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:54.797][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:54.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.800][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.807][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:54.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:54.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.826][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:54.828][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:54.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.839][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:54.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:54.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.869][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:54.871][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:54.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.878][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.880][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:54.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:54.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.896][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:54.902][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:54.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.910][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.912][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:54.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:54.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.928][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:54.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:54.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.941][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:54.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:54.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.981][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:54.983][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:54.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:54.991][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:54.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:54.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:55.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.008][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.014][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.021][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.038][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:55.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:55.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.047][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:55.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:55.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.069][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:55.071][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:55.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.078][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.080][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:55.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:55.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.094][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:55.096][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:55.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.103][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.109][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:55.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:55.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.120][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:55.126][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.133][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.135][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:55.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:55.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:55.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:55.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:55.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:55.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:55.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.192][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:55.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:55.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.206][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:55.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:55.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.221][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:55.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:55.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.232][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:55.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:55.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.246][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:55.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:55.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.261][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:55.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:55.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:55.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:55.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:55.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:55.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:55.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:55.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:55.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:55.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:55.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:55.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:55.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.380][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:55.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:55.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:55.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:55.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.406][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:55.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:55.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.421][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:55.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:55.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.431][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:55.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:55.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:55.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:55.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.477][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:55.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.503][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:55.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:55.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.518][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:55.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:55.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.534][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:55.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:55.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:55.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:55.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:55.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:55.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.586][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:55.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:55.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:55.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:55.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:55.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:55.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:55.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:55.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:55.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:55.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:55.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:55.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:55.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:55.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.702][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:55.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:55.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.718][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:55.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:55.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.735][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:55.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:55.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:55.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.820][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:55.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:55.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.837][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:55.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:55.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:55.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:55.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.870][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:55.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:55.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.887][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:55.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:55.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.903][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:55.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:55.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.919][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:55.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:55.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.938][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:55.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:55.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.953][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:55.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:55.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.968][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:55.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:55.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:55.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:55.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:55.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:55.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:55.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:56.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.010][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:56.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.053][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:56.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:56.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:56.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:56.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:56.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:56.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:56.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:56.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:56.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:56.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:56.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:56.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.125][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:56.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:56.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.132][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:56.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:56.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.163][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:56.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:56.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:56.269][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-31 04:14:56.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:56.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:56.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:56.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:56.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 04:14:56.338][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 04:14:56.340][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 04:14:56.346][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 04:14:56.354][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 04:14:56.355][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:56.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:56.358][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:56.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:56.365][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 04:14:56.386][biodb::testContext]
biodb.INFO [2025-01-31 04:14:56.388][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:56.394][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-31 04:14:56.396][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 04:14:56.402][biodb::testContext]
biodb.INFO [2025-01-31 04:14:56.415][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 04:14:56.422][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 04:14:56.431][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:56.437][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 04:14:56.439][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 04:14:56.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.454][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 04:14:56.456][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 04:14:56.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.471][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 04:14:56.472][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 04:14:56.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.487][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 04:14:56.492][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 04:14:56.494][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 04:14:56.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.509][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 04:14:56.511][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 04:14:56.534][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 04:14:56.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.550][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 04:14:56.551][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 04:14:56.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.566][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 04:14:56.567][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 04:14:56.573][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 04:14:56.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.583][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 04:14:56.589][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 04:14:56.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.600][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 04:14:56.605][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 04:14:56.607][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 04:14:56.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.621][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 04:14:56.623][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 04:14:56.629][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 04:14:56.630][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 04:14:56.632][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 04:14:56.638][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 04:14:56.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.652][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 04:14:56.654][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 04:14:56.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.664][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 04:14:56.670][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 04:14:56.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.685][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 04:14:56.687][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 04:14:56.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.696][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[2025-01-31 04:14:56.702][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 04:14:56.704][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 04:14:56.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.718][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 04:14:56.720][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 04:14:56.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.734][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 04:14:56.736][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 04:14:56.753][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 04:14:56.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.760][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 04:14:56.766][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 04:14:56.768][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 04:14:56.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:56.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:56.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:56.783][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 04:14:56.790][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:56.792][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-31 04:14:56.798][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.800][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:56.806][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.807][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:56.813][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:56.815][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:56.821][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 04:14:56.823][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:56.829][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.831][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 04:14:56.836][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:56.838][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:56.840][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.846][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:56.846][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 04:14:56.846][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 04:14:56.846][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 04:14:56.846][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 04:14:56.848][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:56.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:56.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:56.861][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:56.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:56.869][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:56.870][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:56.872][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:56.878][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:56.879][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:56.885][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:56.887][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:56.893][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 04:14:56.896][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:56.919][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 04:14:56.925][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.927][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:56.933][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.935][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:56.938][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:56.939][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:56.949][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 04:14:56.951][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:56.957][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.959][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 04:14:56.964][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:56.966][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:56.968][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:56.974][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:56.974][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 04:14:56.974][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 04:14:56.974][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 04:14:56.974][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 04:14:56.976][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:56.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:56.983][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:56.988][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:56.990][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:56.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:56.998][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:56.999][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.005][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:57.007][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:57.012][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:57.014][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.016][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 04:14:57.023][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.029][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-31 04:14:57.031][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.036][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:57.038][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.040][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:57.046][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:57.047][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:57.053][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 04:14:57.055][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:57.061][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:57.063][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 04:14:57.069][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:57.070][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.072][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.078][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.084][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:57.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:57.088][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:57.094][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:57.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:57.102][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:57.104][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:57.110][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:57.118][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:57.120][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:57.126][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.128][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 04:14:57.135][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.141][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 04:14:57.143][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.149][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:57.151][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.161][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 04:14:57.163][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:57.169][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:57.171][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 04:14:57.177][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:57.179][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:57.185][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 04:14:57.187][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:57.193][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.195][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:57.201][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.203][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 04:14:57.209][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:57.211][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:57.217][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:57.219][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:57.224][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:57.226][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:57.228][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.234][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:57.236][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:57.242][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:57.244][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:57.251][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:57.257][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.275][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[2025-01-31 04:14:57.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.354][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[2025-01-31 04:14:57.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.556][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 04:14:57.558][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 04:14:57.561][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 04:14:57.563][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 04:14:57.566][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 04:14:57.568][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 04:14:57.571][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 04:14:57.573][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 04:14:57.576][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 04:14:57.578][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 04:14:57.581][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 04:14:57.583][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 04:14:57.586][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 04:14:57.588][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 04:14:57.591][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 04:14:57.593][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 04:14:57.596][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 04:14:57.598][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 04:14:57.601][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 04:14:57.603][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 04:14:57.605][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 04:14:57.608][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 04:14:57.610][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 04:14:57.612][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 04:14:57.615][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 04:14:57.625][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 04:14:57.628][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 04:14:57.631][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 04:14:57.633][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 04:14:57.635][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 04:14:57.638][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 04:14:57.640][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 04:14:57.643][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 04:14:57.645][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 04:14:57.647][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 04:14:57.650][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 04:14:57.652][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 04:14:57.655][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 04:14:57.657][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 04:14:57.660][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 04:14:57.662][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 04:14:57.665][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 04:14:57.667][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 04:14:57.670][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 04:14:57.672][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 04:14:57.686][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 04:14:57.692][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 04:14:57.695][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 04:14:57.702][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 04:14:57.709][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 04:14:57.711][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 04:14:57.718][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 04:14:57.725][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 04:14:57.727][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 04:14:57.734][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 04:14:57.741][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 04:14:57.744][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 04:14:57.751][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 04:14:57.758][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 04:14:57.765][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 04:14:57.768][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 04:14:57.774][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 04:14:57.777][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 04:14:57.780][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 04:14:57.782][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 04:14:57.785][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 04:14:57.788][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 04:14:57.790][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 04:14:57.793][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 04:14:57.796][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 04:14:57.798][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 04:14:57.801][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 04:14:57.804][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 04:14:57.806][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 04:14:57.809][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 04:14:57.811][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 04:14:57.814][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 04:14:57.816][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 04:14:57.819][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 04:14:57.821][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 04:14:57.823][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 04:14:57.826][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 04:14:57.828][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 04:14:57.831][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 04:14:57.841][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 04:14:57.843][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 04:14:57.845][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.848][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.941][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[2025-01-31 04:14:57.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.974][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[2025-01-31 04:14:57.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:57.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:57.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:57.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:57.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:57.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:57.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:57.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:58.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:58.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:58.004][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[2025-01-31 04:14:58.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:58.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:58.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:58.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:58.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:58.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:58.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:58.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:58.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:58.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:58.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:58.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:58.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:58.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:58.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:58.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:58.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:58.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:58.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:58.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:58.033][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[2025-01-31 04:14:58.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 04:14:58.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:58.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:58.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:58.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:58.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:58.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:58.045][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 04:14:58.058][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:58.062][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:58.064][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 04:14:58.065][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:58.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 04:14:58.068][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:58.070][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 04:14:58.072][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:58.073][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 04:14:58.075][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 04:14:58.077][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 04:14:58.079][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:58.081][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 04:14:58.082][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 04:14:58.084][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 04:14:58.086][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 04:14:58.088][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 04:14:58.088][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 04:14:58.088][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 04:14:58.090][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 04:14:58.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:58.093][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:58.094][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 04:14:58.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 04:14:58.097][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 04:14:58.098][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 04:14:58.100][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 04:14:58.100][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 04:14:58.101][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:58.102][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:58.104][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 04:14:58.105][self$setPropertyValue]
biodb.DEBUG[2025-01-31 04:14:58.107][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 04:14:58.110][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 04:14:58.112][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 04:14:58.115][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 04:14:58.118][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 04:14:58.123][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:58.124][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 04:14:58.126][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:58.128][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:58.130][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:58.131][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:58.133][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 04:14:58.135][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 04:14:58.136][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 04:14:58.136][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 04:14:58.138][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 04:14:58.139][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 04:14:58.141][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 04:14:58.142][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 04:14:58.144][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 04:14:58.146][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:58.148][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:58.149][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:58.151][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 04:14:58.153][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 04:14:58.155][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 04:14:58.157][biodb::testThat]
biodb.INFO [2025-01-31 04:14:58.159][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-31 04:14:58.160][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 04:14:58.162][biodb::testThat]
biodb.DEBUG[2025-01-31 04:14:58.165][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 04:14:58.166][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-31 04:14:58.168][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-31 04:14:58.174][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:58.176][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:58.179][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:58.181][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:58.183][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:58.185][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:58.186][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:58.188][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:58.189][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:58.191][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 04:14:58.192][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-31 04:14:58.197][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-31 04:14:58.198][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 04:14:58.201][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:58.203][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 04:14:58.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 04:14:58.208][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 04:14:58.214][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-31 04:14:58.216][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 04:14:58.218][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 04:14:58.219][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 04:14:58.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:58.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:58.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:58.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:58.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:58.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:58.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:14:58.254][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.256][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.259][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.268][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.269][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.272][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.274][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.280][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.282][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.285][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.287][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.294][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.296][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.298][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.301][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.312][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.320][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.322][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.325][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.333][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.335][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.338][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.340][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.348][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.350][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.354][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.356][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.363][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.365][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.367][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.370][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.376][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.378][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.381][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.383][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.391][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:58.393][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:58.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.395][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.399][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:58.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:58.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.406][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:58.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:58.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.419][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:58.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:58.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.428][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.429][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.432][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.440][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.442][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.445][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.453][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.454][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.457][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.465][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:58.467][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:58.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.470][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.472][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:58.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:58.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:58.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:58.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.483][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:58.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:58.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.491][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:58.493][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.496][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.498][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:58.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.523][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.530][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.536][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:58.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.542][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.548][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.554][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:58.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:58.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:58.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.615][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.621][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.626][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:58.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.638][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.645][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:58.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.651][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.663][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:58.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.669][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:58.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:58.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.675][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:58.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:58.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.680][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:58.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:58.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:58.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:58.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:58.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:58.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:58.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:58.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:58.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:58.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:58.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:58.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:58.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:58.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.739][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.745][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.759][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:58.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:58.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.783][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.788][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.794][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.800][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.806][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.811][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:58.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.817][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.823][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.829][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:58.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.835][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:58.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:58.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:58.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:58.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.846][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:58.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:58.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.852][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:58.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.876][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:58.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:58.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:58.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:58.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.925][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:58.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:58.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.932][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:58.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:58.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.943][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:58.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:58.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:58.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:58.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:58.986][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 04:14:58.988][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:58.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:58.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:58.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:58.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:58.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:58.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.005][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:59.011][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:14:59.013][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 04:14:59.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:59.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:59.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:59.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:59.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:59.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:59.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:59.031][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-31 04:14:59.032][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 04:14:59.035][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:59.037][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 04:14:59.040][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-31 04:14:59.042][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 04:14:59.044][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-31 04:14:59.045][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 04:14:59.047][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 04:14:59.049][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 04:14:59.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:59.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:59.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:59.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:59.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:59.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:59.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:14:59.069][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.071][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.073][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.090][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.092][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.095][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.097][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.103][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.105][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.107][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.109][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.115][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.117][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.120][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.122][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.129][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.132][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.140][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.142][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.144][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.152][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.154][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.159][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.165][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.166][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.169][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.171][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.177][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.179][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.182][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.184][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.189][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.191][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.194][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.202][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:59.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:59.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.206][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.208][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:59.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:59.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.214][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:59.216][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:59.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.219][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:59.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:59.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.232][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.251][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.261][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.263][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.274][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.275][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.278][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.280][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.285][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:59.287][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:59.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.290][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.292][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:59.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:59.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.298][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:59.299][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.302][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.304][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 04:14:59.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.329][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.335][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.340][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 04:14:59.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.346][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.352][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.358][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 04:14:59.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 04:14:59.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 04:14:59.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.402][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.407][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.423][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 04:14:59.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.430][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 04:14:59.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.452][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.458][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 04:14:59.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.464][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.469][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.475][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:59.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:59.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:59.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:59.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 04:14:59.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 04:14:59.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:59.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:59.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:59.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:59.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 04:14:59.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 04:14:59.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.538][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.549][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 04:14:59.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 04:14:59.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.600][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.605][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.611][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 04:14:59.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.617][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.623][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.629][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 04:14:59.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.635][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:59.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:59.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.641][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:59.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:59.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.647][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 04:14:59.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 04:14:59.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.652][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:59.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.678][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 04:14:59.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 04:14:59.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.704][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 04:14:59.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 04:14:59.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.725][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:59.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:59.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.736][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:59.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:59.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.767][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:59.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 04:14:59.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 04:14:59.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 04:14:59.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:59.884][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-31 04:14:59.886][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.902][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.912][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:14:59.927][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:14:59.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:14:59.941][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:14:59.943][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:59.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:14:59.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:14:59.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:14:59.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:14:59.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:14:59.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:14:59.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:14:59.969][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 04:14:59.971][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-31 04:14:59.973][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-31 04:14:59.975][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:59.977][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:59.979][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:14:59.982][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:14:59.983][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:14:59.985][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:14:59.987][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:14:59.988][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:14:59.990][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:14:59.991][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 04:14:59.993][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 04:14:59.995][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:14:59.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:14:59.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.002][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.008][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.014][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.020][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.026][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:15:00.037][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:15:00.047][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 04:15:00.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:15:00.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:15:00.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:15:00.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:15:00.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:15:00.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:15:00.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 04:15:00.064][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.069][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.075][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.080][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.086][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.092][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.098][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:15:00.104][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-31 04:15:00.105][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 04:15:00.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:15:00.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:15:00.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:15:00.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:15:00.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:15:00.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:15:00.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 04:15:00.128][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 04:15:00.129][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-31 04:15:00.131][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-31 04:15:00.133][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:15:00.135][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:15:00.137][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 04:15:00.139][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 04:15:00.141][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 04:15:00.143][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 04:15:00.144][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 04:15:00.146][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 04:15:00.147][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 04:15:00.149][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 04:15:00.150][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 04:15:00.153][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.171][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.178][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.185][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.192][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:15:00.198][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-31 04:15:00.199][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-31 04:15:00.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:15:00.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:15:00.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:15:00.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:15:00.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:15:00.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:15:00.225][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.TRACE[2025-01-31 04:15:00.226][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.232][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.239][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.245][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.252][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.258][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 04:15:00.264][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 04:15:00.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 04:15:00.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 04:15:00.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 04:15:00.271][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 04:15:00.273][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 04:15:00.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 04:15:00.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:15:00.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:15:00.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:15:00.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:15:00.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:15:00.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 04:15:00.300][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 04:15:00.302][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 04:15:00.304][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 04:15:00.305][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 04:15:00.306][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 04:15:00.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 04:15:00.309][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 04:15:00.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 04:15:00.312][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 04:15:00.313][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 13.348   0.424  35.079

Example timings