Pierrick Roger
| Snapshot Date: 2025-09-25 13:40 -0400 (Thu, 25 Sep 2025) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: RELEASE_3_21 |
| git_last_commit: a7f0a0f |
| git_last_commit_date: 2025-04-15 12:42:50 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-09-29 11:41 -0400 (Mon, 29 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4827 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4608 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4549 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4580 |
| 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 207/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.14.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
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. |
| Package: biodbHmdb |
| Version: 1.14.0 |
| 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_1.14.0.tar.gz |
| StartedAt: 2025-09-26 08:21:37 -0000 (Fri, 26 Sep 2025) |
| EndedAt: 2025-09-26 08:36:34 -0000 (Fri, 26 Sep 2025) |
| EllapsedTime: 897.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
##############################################################################
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###
### 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_1.14.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.14.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking 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-3.21-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... INFO
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, 2 NOTEs
See
‘/home/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
##############################################################################
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘biodbHmdb’ ...
** this is package ‘biodbHmdb’ version ‘1.14.0’
** 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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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-devel_2025-02-19/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)
biodbHmdb.Rcheck/tests/testthat.Rout
R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-09-26 08:34:50.409][biodb::testContext]
biodb.INFO [2025-09-26 08:34:50.411][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:34:50.413][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-09-26 08:34:50.414][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:34:50.415][biodb::testContext]
biodb.INFO [2025-09-26 08:34:50.418][biodb::testThat]
biodb.INFO [2025-09-26 08:34:50.419][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2025-09-26 08:34:50.420][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:50.421][biodb::testThat]
biodb.INFO [2025-09-26 08:34:50.548][biodb::testContext]
biodb.INFO [2025-09-26 08:34:50.549][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:34:50.550][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-26 08:34:50.552][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:34:50.553][biodb::testContext]
biodb.INFO [2025-09-26 08:34:50.563][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-09-26 08:34:50.566][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-26 08:34:50.576][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:34:50.577][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-26 08:34:50.579][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-26 08:34:50.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.583][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-26 08:34:50.620][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-26 08:34:50.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.625][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-26 08:34:50.627][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-26 08:34:50.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.632][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-26 08:34:50.633][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-26 08:34:50.635][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-26 08:34:50.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.639][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-26 08:34:50.641][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-26 08:34:50.642][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-26 08:34:50.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.647][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-26 08:34:50.649][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-26 08:34:50.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.654][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-26 08:34:50.655][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-26 08:34:50.657][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-26 08:34:50.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.662][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-26 08:34:50.663][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-26 08:34:50.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.668][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-26 08:34:50.670][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-26 08:34:50.671][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-26 08:34:50.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.676][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-26 08:34:50.678][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-26 08:34:50.679][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-26 08:34:50.680][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-26 08:34:50.682][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-26 08:34:50.684][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-26 08:34:50.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.689][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-26 08:34:50.691][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-26 08:34:50.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.696][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-26 08:34:50.697][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-26 08:34:50.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.702][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-26 08:34:50.704][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-26 08:34:50.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.709][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-26 08:34:50.711][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-26 08:34:50.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.716][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-26 08:34:50.717][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-26 08:34:50.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.722][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-26 08:34:50.724][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-26 08:34:50.730][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-26 08:34:50.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.735][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-26 08:34:50.737][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-26 08:34:50.738][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-26 08:34:50.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.747][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-26 08:34:50.796][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.820][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-26 08:34:50.821][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.822][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:34:50.824][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.825][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.826][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.828][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.829][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-26 08:34:50.830][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:34:50.832][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.833][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-26 08:34:50.835][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:34:50.836][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.837][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.839][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:34:50.839][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-26 08:34:50.839][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-26 08:34:50.839][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-26 08:34:50.839][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-26 08:34:50.840][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:34:50.841][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.843][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.844][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:34:50.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.848][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.858][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.859][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:34:50.860][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:34:50.862][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.863][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.864][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-26 08:34:50.867][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.868][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-26 08:34:50.870][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.871][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:34:50.872][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.874][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.875][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.876][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.878][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-26 08:34:50.879][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:34:50.880][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.882][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-26 08:34:50.883][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:34:50.884][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.886][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.887][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:34:50.887][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-26 08:34:50.887][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-26 08:34:50.887][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-26 08:34:50.887][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-26 08:34:50.889][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:34:50.890][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.891][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.892][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:34:50.894][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.896][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.897][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.899][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:34:50.900][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:34:50.901][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.903][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.904][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-26 08:34:50.907][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.908][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-26 08:34:50.909][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.911][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:34:50.912][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.913][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.915][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.916][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.917][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-26 08:34:50.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:34:50.920][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.921][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-26 08:34:50.923][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:34:50.924][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.925][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.926][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.928][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:34:50.929][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.930][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.931][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:34:50.933][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.934][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.935][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.936][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.938][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:34:50.939][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:34:50.940][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.941][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.943][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-26 08:34:50.945][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.947][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-26 08:34:50.948][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:34:50.951][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.952][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.954][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.955][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.956][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-26 08:34:50.957][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:34:50.959][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.960][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-26 08:34:50.961][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:34:50.963][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.964][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:50.965][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.967][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:34:50.968][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.969][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.970][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:34:50.972][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:50.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:50.974][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:34:50.975][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.977][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:34:50.978][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:34:50.979][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:50.980][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:50.985][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:34:50.987][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:50.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:50.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:50.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:50.994][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[2025-09-26 08:34:50.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:50.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:50.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:50.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.023][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[2025-09-26 08:34:51.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.029][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[2025-09-26 08:34:51.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.088][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-26 08:34:51.101][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-26 08:34:51.103][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-26 08:34:51.105][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-26 08:34:51.107][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-26 08:34:51.109][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-26 08:34:51.111][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-26 08:34:51.113][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-26 08:34:51.114][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-26 08:34:51.116][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-26 08:34:51.118][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-26 08:34:51.120][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-26 08:34:51.122][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-26 08:34:51.124][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-26 08:34:51.126][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-26 08:34:51.128][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-26 08:34:51.130][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-26 08:34:51.132][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-26 08:34:51.134][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-26 08:34:51.136][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-26 08:34:51.138][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-26 08:34:51.140][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-26 08:34:51.142][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-26 08:34:51.144][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-26 08:34:51.146][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-26 08:34:51.148][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-26 08:34:51.150][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-26 08:34:51.152][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-26 08:34:51.154][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-26 08:34:51.156][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-26 08:34:51.158][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-26 08:34:51.159][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-26 08:34:51.161][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-26 08:34:51.163][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-26 08:34:51.165][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-26 08:34:51.167][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-26 08:34:51.169][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-26 08:34:51.171][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-26 08:34:51.173][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-26 08:34:51.175][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-26 08:34:51.177][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-26 08:34:51.179][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-26 08:34:51.181][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-26 08:34:51.183][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-26 08:34:51.185][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-26 08:34:51.188][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-26 08:34:51.190][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-26 08:34:51.192][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-26 08:34:51.194][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-26 08:34:51.196][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-26 08:34:51.198][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-26 08:34:51.200][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-26 08:34:51.202][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-26 08:34:51.204][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-26 08:34:51.206][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-26 08:34:51.208][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-26 08:34:51.210][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-26 08:34:51.212][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-26 08:34:51.214][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-26 08:34:51.216][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-26 08:34:51.219][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-26 08:34:51.221][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-26 08:34:51.223][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-26 08:34:51.225][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-26 08:34:51.227][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-26 08:34:51.229][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-26 08:34:51.231][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-26 08:34:51.233][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-26 08:34:51.235][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-26 08:34:51.237][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-26 08:34:51.239][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-26 08:34:51.241][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-26 08:34:51.243][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-26 08:34:51.245][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-26 08:34:51.247][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-26 08:34:51.249][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-26 08:34:51.250][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-26 08:34:51.252][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-26 08:34:51.254][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-26 08:34:51.256][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-26 08:34:51.258][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-26 08:34:51.260][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-26 08:34:51.262][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-26 08:34:51.271][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-26 08:34:51.273][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-09-26 08:34:51.278][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:34:51.279][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.282][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.436][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[2025-09-26 08:34:51.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:34:51.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:34:51.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.479][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[2025-09-26 08:34:51.481][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-09-26 08:34:51.497][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:34:51.501][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:51.502][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-26 08:34:51.504][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:51.506][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:34:51.507][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:51.509][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-09-26 08:34:51.510][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:51.512][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:34:51.514][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-26 08:34:51.515][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:34:51.517][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:51.518][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-09-26 08:34:51.520][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-09-26 08:34:51.521][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-09-26 08:34:51.523][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-26 08:34:51.524][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:34:51.524][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-09-26 08:34:51.524][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-09-26 08:34:51.526][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-26 08:34:51.527][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:51.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:51.530][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:34:51.531][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:34:51.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:34:51.534][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:34:51.536][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-09-26 08:34:51.536][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-09-26 08:34:51.537][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:34:51.538][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:34:51.540][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-26 08:34:51.541][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:34:51.551][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-09-26 08:34:51.553][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-26 08:34:51.556][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-26 08:34:51.558][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-26 08:34:51.560][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-26 08:34:51.595][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:34:51.597][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-09-26 08:34:51.603][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:34:51.609][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:34:51.615][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:34:51.616][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:34:51.618][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-09-26 08:34:51.620][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-09-26 08:34:51.621][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-09-26 08:34:51.621][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-09-26 08:34:51.623][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:34:51.624][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:34:51.625][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-09-26 08:34:51.626][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-09-26 08:34:51.628][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:34:51.668][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:34:51.670][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:34:51.671][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:34:51.674][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:34:51.676][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:34:51.677][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-09-26 08:34:51.688][biodb::testThat]
biodb.INFO [2025-09-26 08:34:51.689][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-09-26 08:34:51.691][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:51.692][biodb::testThat]
biodb.TRACE[2025-09-26 08:34:51.699][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-09-26 08:34:51.702][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-26 08:34:51.707][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-26 08:34:51.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:34:51.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:51.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:51.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:51.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:51.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:51.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-26 08:34:51.751][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:51.753][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:51.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.756][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:51.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:51.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.783][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:51.785][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:51.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.788][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.830][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:51.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:51.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.836][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:51.838][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:51.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.840][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.842][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:51.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:51.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.849][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:51.851][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:51.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.853][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.856][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:51.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:51.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.861][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:51.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:51.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.866][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:51.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:51.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.874][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:51.876][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:51.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.878][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:51.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:51.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.886][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:51.888][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:51.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.891][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.893][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:51.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:51.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.911][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:51.913][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:51.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.916][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.918][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:51.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:51.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.925][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:51.926][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:51.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.932][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:51.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:51.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.939][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:51.941][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:51.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.944][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.946][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:51.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:51.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.952][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:51.953][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:51.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.956][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.958][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:51.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:51.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.964][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:51.965][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:51.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.968][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:51.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:51.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.976][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:51.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:51.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.981][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:51.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:51.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:51.991][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:51.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:51.994][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:51.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:51.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:51.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.003][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.004][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.007][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.015][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:52.017][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:52.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.020][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:52.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:52.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.028][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:52.029][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:52.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.032][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:52.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:52.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.041][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:34:52.043][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.046][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.049][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:34:52.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.136][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:52.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:52.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.143][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:52.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:52.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.150][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:52.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:52.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.156][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:52.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:52.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.162][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:52.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:52.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.167][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:52.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:52.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.206][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:52.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:52.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.212][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:52.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:52.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.218][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:52.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:52.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.223][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:52.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:52.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:52.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:52.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.235][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:52.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:52.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.240][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.246][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.252][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:52.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.258][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:52.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:52.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.263][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:52.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:52.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.269][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:52.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:52.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:52.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:52.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:52.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:52.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:52.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:52.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:52.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:52.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:52.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:52.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:52.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:52.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.325][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.331][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.337][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:52.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:52.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:52.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:52.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:52.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:52.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.385][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.391][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.396][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.402][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.408][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.413][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.419][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:52.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:52.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.424][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:52.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:52.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.431][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:52.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:52.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.437][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:34:52.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.460][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:34:52.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:52.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.495][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.519][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.526][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.533][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.546][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:52.599][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-09-26 08:34:52.602][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-26 08:34:52.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-26 08:34:52.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.608][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-26 08:34:52.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-26 08:34:52.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.614][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-26 08:34:52.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-26 08:34:52.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-26 08:34:52.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-26 08:34:52.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.658][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.706][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.711][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.717][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:52.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.750][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.752][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.755][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:52.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:52.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.773][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.778][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.794][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.799][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.801][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.804][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.805][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:52.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.840][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.842][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.844][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:52.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.862][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.868][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.873][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.879][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.880][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.883][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.884][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:52.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.923][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:52.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.942][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.948][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.954][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.960][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.962][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.964][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.966][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:52.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.982][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:52.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:52.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:52.994][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:52.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:53.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.009][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:53.010][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:53.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.013][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:53.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:53.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:53.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:53.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.038][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:53.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:53.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.043][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:53.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:53.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.049][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:53.051][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:53.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.054][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.055][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:53.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:53.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.072][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:53.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:53.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:53.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:53.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:53.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:53.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.091][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:53.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:53.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.096][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:53.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:53.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.115][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.121][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.127][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.133][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.135][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.138][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.139][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.178][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.179][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.182][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.203][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.222][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.233][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.237][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.239][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.257][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.263][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.269][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.276][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.278][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.281][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.283][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.301][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.308][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.315][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.321][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.323][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.326][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.328][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.346][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:53.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:53.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.353][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:53.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:53.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:53.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:53.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.368][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:53.369][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:53.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.372][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:53.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:53.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:53.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:53.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:53.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:53.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:53.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:53.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.414][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:53.415][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:53.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.418][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:53.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:53.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.444][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.450][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.456][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.458][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.460][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.488][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.494][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.500][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.505][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.507][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.510][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.512][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.529][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:53.531][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:53.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.534][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.541][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.543][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.546][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.553][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.555][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.558][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:53.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:53.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.569][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.576][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:53.578][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:53.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.581][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.588][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.590][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:53.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.593][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.600][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.602][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:53.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.605][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.612][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.614][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:53.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.616][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.623][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:53.625][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:53.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.628][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.635][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:53.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:53.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.641][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.648][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:53.650][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:53.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.653][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:53.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.673][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:53.674][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:53.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.678][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.685][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:53.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.690][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.706][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:53.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:53.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.711][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.719][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:53.721][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:53.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.724][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.732][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:53.733][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:53.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.737][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.744][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:53.746][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:53.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.749][ef$get] fields variable is a list.
biodb.INFO [2025-09-26 08:34:53.761][biodb::testThat]
biodb.INFO [2025-09-26 08:34:53.763][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-26 08:34:53.764][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:53.766][biodb::testThat]
biodb.DEBUG[2025-09-26 08:34:53.789][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-09-26 08:34:53.799][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-26 08:34:53.809][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:53.811][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-09-26 08:34:53.815][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-09-26 08:34:53.817][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-26 08:34:53.821][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-09-26 08:34:53.824][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-09-26 08:34:53.863][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-26 08:34:53.865][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-26 08:34:53.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:34:53.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:34:53.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:34:53.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:34:53.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:34:53.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:34:53.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-26 08:34:53.889][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:53.891][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:53.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:53.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:53.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.904][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:53.906][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:53.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.909][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.911][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:53.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:53.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.918][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.920][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.923][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.926][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:53.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.933][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.934][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.938][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.940][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:53.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:53.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:53.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.962][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:53.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:53.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.972][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:53.974][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:53.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:53.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:53.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.987][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:53.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:53.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:53.992][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:53.995][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:53.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:53.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.018][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.023][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.029][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.035][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.046][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.049][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.054][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.057][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.069][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.072][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.077][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.081][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.092][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:54.095][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:54.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.100][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.104][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:54.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:54.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:54.117][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:54.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:54.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:54.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.139][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.144][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.158][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.161][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.165][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.177][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.180][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.184][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.196][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:54.198][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:54.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.202][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.205][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:54.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:54.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.214][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:54.216][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:54.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:54.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:54.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.233][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:34:54.235][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.243][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:34:54.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.280][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:54.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:54.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.288][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:54.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:54.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.344][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:34:54.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:34:54.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.353][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:54.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:54.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.363][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:54.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:54.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.371][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:34:54.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:34:54.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:54.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:54.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:54.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:54.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:34:54.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:34:54.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:54.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:54.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:54.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:54.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:54.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:34:54.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.424][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.431][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.437][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:34:54.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.444][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.450][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.456][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:34:54.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.467][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.473][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:34:54.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:54.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:54.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.485][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:54.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:54.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.491][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:54.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:54.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:54.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:54.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.502][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:54.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:54.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.508][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:34:54.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:34:54.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:54.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:54.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:54.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:34:54.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:34:54.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.550][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:54.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:54.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.556][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:54.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:54.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.563][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:54.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:34:54.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:34:54.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.613][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.618][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.624][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:34:54.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.630][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:54.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:54.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.636][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:54.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:54.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.642][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:54.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:54.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:54.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:54.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.654][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:54.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:54.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.659][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:34:54.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:34:54.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.665][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:34:54.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.689][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:34:54.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:34:54.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.702][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.725][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:54.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:54.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.731][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:54.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:54.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.743][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:54.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:34:54.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:34:54.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:34:54.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:54.792][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-09-26 08:34:54.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-26 08:34:54.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-26 08:34:54.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-26 08:34:54.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-26 08:34:54.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-26 08:34:54.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-26 08:34:54.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-26 08:34:54.824][biodb::testThat]
biodb.INFO [2025-09-26 08:34:54.826][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-26 08:34:54.827][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:54.829][biodb::testThat]
biodb.TRACE[2025-09-26 08:34:54.834][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.836][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.839][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:54.841][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-09-26 08:34:54.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:54.908][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-09-26 08:34:54.911][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-09-26 08:34:54.912][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-09-26 08:34:54.914][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-09-26 08:34:54.917][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:54.919][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:54.921][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:34:54.924][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:54.925][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:34:54.928][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:34:54.930][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:34:54.932][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:34:54.934][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:34:54.935][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-09-26 08:34:54.937][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-09-26 08:34:54.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.946][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:54.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:54.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:54.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:54.964][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:34:54.966][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-09-26 08:34:54.967][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-09-26 08:34:54.985][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:54.987][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:54.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:54.990][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:54.992][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-09-26 08:34:55.018][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:55.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:55.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.024][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:55.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:55.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.030][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:55.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:55.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:55.040][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[2025-09-26 08:34:55.126][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-09-26 08:34:55.127][private$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[2025-09-26 08:34:55.129][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-09-26 08:34:55.152][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.155][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.157][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:34:55.159][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.160][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:34:55.192][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:34:55.194][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:34:55.195][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:34:55.197][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:34:55.198][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-09-26 08:34:55.199][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-09-26 08:34:55.202][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:55.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:55.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.208][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:55.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:55.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.214][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:55.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:55.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.220][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:34:55.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:34:55.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:55.226][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:34:55.227][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-09-26 08:34:55.228][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-09-26 08:34:55.245][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.247][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.250][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:55.251][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-09-26 08:34:55.269][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.274][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.280][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:55.289][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-09-26 08:34:55.291][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-09-26 08:34:55.293][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-09-26 08:34:55.294][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-09-26 08:34:55.296][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.298][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.301][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:34:55.303][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.304][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:34:55.306][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:34:55.307][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:34:55.309][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:34:55.310][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:34:55.311][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-09-26 08:34:55.313][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-09-26 08:34:55.315][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.321][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.327][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.333][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:34:55.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:55.339][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:34:55.340][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-09-26 08:34:55.342][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-09-26 08:34:55.364][biodb::testThat]
biodb.INFO [2025-09-26 08:34:55.365][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-09-26 08:34:55.367][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:55.368][biodb::testThat]
biodb.TRACE[2025-09-26 08:34:55.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:55.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:55.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:55.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:55.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.404][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:55.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:55.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:55.425][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-09-26 08:34:55.427][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-09-26 08:34:55.428][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-09-26 08:34:55.430][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.433][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.435][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:34:55.437][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:34:55.438][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:34:55.445][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:34:55.448][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:34:55.450][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:34:55.452][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:34:55.454][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-09-26 08:34:55.455][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-09-26 08:34:55.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:55.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:55.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:55.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:55.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:55.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:55.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:34:55.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:34:55.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:34:55.486][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:34:55.487][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-09-26 08:34:55.512][biodb::testThat]
biodb.INFO [2025-09-26 08:34:55.513][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-09-26 08:34:55.515][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:55.517][biodb::testThat]
biodb.TRACE[2025-09-26 08:34:55.552][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.558][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.564][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-26 08:34:55.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-26 08:34:55.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.570][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-26 08:34:55.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-26 08:34:55.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.657][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.664][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-26 08:34:55.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.669][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-26 08:34:55.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-26 08:34:55.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:34:55.675][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-26 08:34:55.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-26 08:34:55.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:34:55.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-26 08:34:55.688][biodb::testThat]
biodb.INFO [2025-09-26 08:34:55.690][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-26 08:34:55.691][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:55.692][biodb::testThat]
biodb.INFO [2025-09-26 08:34:55.703][biodb::testThat]
biodb.INFO [2025-09-26 08:34:55.705][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-26 08:34:55.706][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:55.708][biodb::testThat]
biodb.INFO [2025-09-26 08:34:55.719][biodb::testThat]
biodb.INFO [2025-09-26 08:34:55.720][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-26 08:34:55.721][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:34:55.723][biodb::testThat]
biodb.DEBUG[2025-09-26 08:34:55.728][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-09-26 08:35:49.695][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-09-26 08:35:50.316][biodb::testThat]
biodb.INFO [2025-09-26 08:35:50.318][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-26 08:35:50.319][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:35:50.321][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:25.400][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-09-26 08:36:25.909][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:25.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:25.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:25.914][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:25.915][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:25.917][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:25.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:25.919][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:25.921][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:25.923][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:25.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:25.925][ef$get] fields variable is a list.
biodb.INFO [2025-09-26 08:36:25.928][biodb::testThat]
biodb.INFO [2025-09-26 08:36:25.929][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-09-26 08:36:25.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:25.932][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:25.935][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-26 08:36:26.022][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-26 08:36:26.024][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.026][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-09-26 08:36:26.052][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-09-26 08:36:26.054][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-09-26 08:36:26.056][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-09-26 08:36:26.058][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-09-26 08:36:26.060][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.062][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-26 08:36:26.064][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-26 08:36:26.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:26.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:26.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:26.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-26 08:36:26.083][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.089][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:26.183][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-09-26 08:36:26.185][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-26 08:36:26.209][biodb::testThat]
biodb.INFO [2025-09-26 08:36:26.210][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-26 08:36:26.212][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:26.213][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:26.225][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-09-26 08:36:26.226][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-09-26 08:36:26.228][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-26 08:36:26.230][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.233][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-09-26 08:36:26.236][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-09-26 08:36:26.237][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-09-26 08:36:26.239][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-09-26 08:36:26.241][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-09-26 08:36:26.243][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.244][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-26 08:36:26.246][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-26 08:36:26.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:26.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:26.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:26.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-26 08:36:26.265][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.272][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:26.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:26.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:26.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:26.317][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-09-26 08:36:26.318][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-26 08:36:26.320][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-09-26 08:36:26.348][biodb::testThat]
biodb.INFO [2025-09-26 08:36:26.350][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-09-26 08:36:26.351][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:26.353][biodb::testThat]
biodb.INFO [2025-09-26 08:36:26.386][biodb::testThat]
biodb.INFO [2025-09-26 08:36:26.387][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-09-26 08:36:26.389][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:26.391][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:26.394][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.397][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.399][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:36:26.401][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.403][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:36:26.405][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:36:26.407][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:36:26.409][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:36:26.410][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-09-26 08:36:26.422][biodb::testThat]
biodb.INFO [2025-09-26 08:36:26.424][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-09-26 08:36:26.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:26.427][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:26.431][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.434][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.436][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:36:26.439][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:26.440][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:36:26.443][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:36:26.444][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:36:26.446][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:36:26.448][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-09-26 08:36:26.461][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:26.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:26.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.466][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.467][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:26.469][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:26.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.472][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:26.474][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:26.476][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:26.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:26.479][ef$get] fields variable is a list.
biodb.INFO [2025-09-26 08:36:26.480][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-09-26 08:36:26.482][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-09-26 08:36:26.495][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-09-26 08:36:26.504][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-26 08:36:26.506][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:26.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:26.510][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.514][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-26 08:36:26.523][biodb::testContext]
biodb.INFO [2025-09-26 08:36:26.525][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:36:26.527][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-09-26 08:36:26.529][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:36:26.530][biodb::testContext]
biodb.INFO [2025-09-26 08:36:26.555][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-09-26 08:36:26.558][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-26 08:36:26.564][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:36:26.566][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-26 08:36:26.567][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-26 08:36:26.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.573][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-26 08:36:26.575][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-26 08:36:26.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.580][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-26 08:36:26.582][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-26 08:36:26.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.587][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-26 08:36:26.589][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-26 08:36:26.591][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-26 08:36:26.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.596][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-26 08:36:26.598][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-26 08:36:26.599][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-26 08:36:26.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.605][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-26 08:36:26.606][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-26 08:36:26.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.612][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-26 08:36:26.613][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-26 08:36:26.615][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-26 08:36:26.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.620][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-26 08:36:26.622][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-26 08:36:26.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.627][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-26 08:36:26.629][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-26 08:36:26.631][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-26 08:36:26.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.636][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-26 08:36:26.637][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-26 08:36:26.639][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-26 08:36:26.640][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-26 08:36:26.642][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-26 08:36:26.643][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-26 08:36:26.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.647][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[2025-09-26 08:36:26.649][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-26 08:36:26.650][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-26 08:36:26.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.656][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-26 08:36:26.657][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-26 08:36:26.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.663][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-26 08:36:26.664][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-26 08:36:26.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.670][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-26 08:36:26.671][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-26 08:36:26.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.677][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-26 08:36:26.678][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-26 08:36:26.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.684][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-26 08:36:26.686][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-26 08:36:26.691][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-26 08:36:26.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.697][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-26 08:36:26.698][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-26 08:36:26.700][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-26 08:36:26.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.705][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-26 08:36:26.708][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.742][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-26 08:36:26.744][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.746][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:26.747][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.749][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.750][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.751][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.753][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-26 08:36:26.754][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:26.756][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.757][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-26 08:36:26.759][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:26.760][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.761][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.763][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:36:26.763][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-26 08:36:26.763][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-26 08:36:26.763][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-26 08:36:26.763][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-26 08:36:26.764][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:26.766][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.767][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.768][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:26.770][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.771][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.772][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.774][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.775][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:26.776][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:26.778][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.779][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.781][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-26 08:36:26.784][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.785][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-26 08:36:26.787][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.788][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:26.790][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.791][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.792][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.794][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.795][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-26 08:36:26.797][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:26.798][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.799][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-26 08:36:26.801][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:26.802][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.804][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.805][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:36:26.805][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-26 08:36:26.805][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-26 08:36:26.805][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-26 08:36:26.805][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-26 08:36:26.807][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:26.808][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.810][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.811][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:26.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.818][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.819][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:26.820][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:26.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.823][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.825][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-26 08:36:26.828][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.829][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-26 08:36:26.831][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.832][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:26.833][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.835][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.836][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.838][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.839][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-26 08:36:26.840][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:26.842][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.843][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-26 08:36:26.845][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:26.846][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.847][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.849][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.850][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:26.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.854][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:26.856][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.857][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.858][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.860][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.861][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:26.863][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:26.864][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.865][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.867][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-26 08:36:26.870][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.871][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-26 08:36:26.873][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.874][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:26.883][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.885][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.887][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.888][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.890][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-26 08:36:26.891][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:26.893][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.894][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-26 08:36:26.896][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:26.897][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.899][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:26.900][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.902][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:26.903][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.904][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.906][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:26.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:26.908][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:26.910][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:26.911][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.913][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:26.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:26.915][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:26.917][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:26.919][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:36:26.920][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.941][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[2025-09-26 08:36:26.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:26.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:26.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:26.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:26.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:26.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.034][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-26 08:36:27.044][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-26 08:36:27.047][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-26 08:36:27.049][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-26 08:36:27.051][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-26 08:36:27.054][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-26 08:36:27.056][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-26 08:36:27.058][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-26 08:36:27.060][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-26 08:36:27.062][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-26 08:36:27.064][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-26 08:36:27.066][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-26 08:36:27.068][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-26 08:36:27.071][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-26 08:36:27.073][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-26 08:36:27.075][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-26 08:36:27.077][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-26 08:36:27.080][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-26 08:36:27.082][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-26 08:36:27.084][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-26 08:36:27.086][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-26 08:36:27.089][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-26 08:36:27.091][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-26 08:36:27.093][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-26 08:36:27.095][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-26 08:36:27.097][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-26 08:36:27.099][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-26 08:36:27.102][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-26 08:36:27.104][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-26 08:36:27.106][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-26 08:36:27.108][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-26 08:36:27.110][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-26 08:36:27.112][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-26 08:36:27.114][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-26 08:36:27.117][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-26 08:36:27.119][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-26 08:36:27.121][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-26 08:36:27.123][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-26 08:36:27.125][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-26 08:36:27.127][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-26 08:36:27.129][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-26 08:36:27.131][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-26 08:36:27.134][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-26 08:36:27.136][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-26 08:36:27.138][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-26 08:36:27.140][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-26 08:36:27.142][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-26 08:36:27.144][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-26 08:36:27.146][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-26 08:36:27.148][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-26 08:36:27.150][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-26 08:36:27.153][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-26 08:36:27.155][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-26 08:36:27.157][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-26 08:36:27.159][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-26 08:36:27.161][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-26 08:36:27.163][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-26 08:36:27.165][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-26 08:36:27.168][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-26 08:36:27.170][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-26 08:36:27.172][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-26 08:36:27.175][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-26 08:36:27.177][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-26 08:36:27.179][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-26 08:36:27.182][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-26 08:36:27.184][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-26 08:36:27.187][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-26 08:36:27.189][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-26 08:36:27.191][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-26 08:36:27.193][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-26 08:36:27.195][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-26 08:36:27.198][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-26 08:36:27.200][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-26 08:36:27.202][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-26 08:36:27.213][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-26 08:36:27.215][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-26 08:36:27.218][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-26 08:36:27.220][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-26 08:36:27.223][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-26 08:36:27.225][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-26 08:36:27.227][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-26 08:36:27.229][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-26 08:36:27.231][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-26 08:36:27.234][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-26 08:36:27.236][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-09-26 08:36:27.237][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:36:27.239][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.241][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.296][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[2025-09-26 08:36:27.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.331][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[2025-09-26 08:36:27.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:27.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:27.410][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-09-26 08:36:27.412][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:27.415][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:27.417][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-26 08:36:27.418][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:27.420][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:27.421][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:27.423][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-09-26 08:36:27.424][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:27.426][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:27.428][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-26 08:36:27.429][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:27.431][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:27.432][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-09-26 08:36:27.434][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-09-26 08:36:27.435][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-09-26 08:36:27.437][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:27.439][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:36:27.439][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-09-26 08:36:27.439][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-09-26 08:36:27.440][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-26 08:36:27.442][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:27.443][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:27.445][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:27.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:27.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:27.449][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:27.450][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-09-26 08:36:27.450][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-09-26 08:36:27.452][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:27.453][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:27.455][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:27.456][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:27.459][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-09-26 08:36:27.461][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-26 08:36:27.464][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-26 08:36:27.466][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-26 08:36:27.469][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-26 08:36:27.474][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:27.476][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-09-26 08:36:27.478][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:27.480][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:36:27.482][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:27.484][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:27.486][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-09-26 08:36:27.488][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-09-26 08:36:27.489][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-09-26 08:36:27.489][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-09-26 08:36:27.491][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:27.492][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:27.494][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-09-26 08:36:27.495][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-09-26 08:36:27.497][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:27.499][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:36:27.501][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:27.502][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:27.505][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:36:27.507][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:27.508][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-09-26 08:36:27.510][biodb::testThat]
biodb.INFO [2025-09-26 08:36:27.512][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-09-26 08:36:27.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:27.514][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:27.520][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:27.523][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:27.525][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:36:27.527][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:27.529][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:36:27.531][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:36:27.533][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:36:27.534][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:36:27.536][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:36:27.549][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-09-26 08:36:27.557][biodb::testThat]
biodb.INFO [2025-09-26 08:36:27.558][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-09-26 08:36:27.560][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:27.561][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:27.564][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-09-26 08:36:27.566][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-26 08:36:27.569][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:27.571][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-09-26 08:36:27.574][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-09-26 08:36:27.576][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-26 08:36:27.580][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-09-26 08:36:27.582][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-09-26 08:36:27.584][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-26 08:36:27.586][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-26 08:36:27.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:27.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:27.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:27.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:27.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:27.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:27.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-26 08:36:27.607][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:27.609][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:27.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.612][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:27.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:27.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.620][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:27.622][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:27.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.626][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:27.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:27.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.633][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.634][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.637][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.639][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.646][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.647][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.650][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.652][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.658][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.660][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.663][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.672][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.673][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.676][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.685][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:27.686][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:27.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.689][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.692][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:27.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:27.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.698][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:27.700][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:27.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.703][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.705][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:27.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:27.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.711][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:27.713][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:27.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.716][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.727][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:27.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:27.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.735][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:27.736][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:27.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.739][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.742][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:27.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:27.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.748][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:27.750][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:27.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.753][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.755][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:27.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:27.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:27.764][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:27.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.767][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:27.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:27.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.776][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:27.778][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:27.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.781][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:27.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:27.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.790][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:27.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:27.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.795][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:27.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:27.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.804][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:27.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:27.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.808][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:27.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:27.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.817][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:27.819][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:27.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.822][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.824][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:27.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:27.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.831][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:27.833][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:27.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.836][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.838][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:27.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:27.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.853][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:36:27.855][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:27.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.859][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.863][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:36:27.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:27.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:27.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:27.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:27.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:27.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:27.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:27.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.901][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:27.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.915][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.940][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.947][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:27.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:27.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:27.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:27.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:27.995][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:27.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:27.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.002][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:28.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:28.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.008][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:28.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:28.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.014][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:28.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:28.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.020][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:28.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:28.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.026][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:28.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:28.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.032][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:28.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:28.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.039][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:28.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:28.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:28.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:28.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.051][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:28.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:28.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.057][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:28.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.063][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:28.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:28.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.069][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:28.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:28.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.075][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:28.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:28.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.080][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:28.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:28.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:28.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:28.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:28.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:28.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:28.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:28.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.112][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:28.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:28.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:28.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:28.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:28.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:28.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:28.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:28.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:28.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:28.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:28.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.170][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.182][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:28.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:28.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.187][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:28.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:28.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.193][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:28.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:28.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.199][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:28.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:28.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.205][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:28.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:28.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.210][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:28.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:28.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:28.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:28.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:28.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:28.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.228][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:28.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:28.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.234][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:36:28.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.260][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:36:28.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:28.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.294][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:28.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:28.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.306][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:28.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:28.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.312][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:28.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:28.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.323][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:28.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:28.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:28.363][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-09-26 08:36:28.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:28.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:28.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:28.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:28.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-26 08:36:28.390][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-09-26 08:36:28.392][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-09-26 08:36:28.404][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-09-26 08:36:28.406][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-26 08:36:28.407][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:28.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:28.410][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.413][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-26 08:36:28.419][biodb::testContext]
biodb.INFO [2025-09-26 08:36:28.421][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:36:28.430][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-09-26 08:36:28.432][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-26 08:36:28.433][biodb::testContext]
biodb.INFO [2025-09-26 08:36:28.439][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-09-26 08:36:28.441][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-26 08:36:28.446][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:36:28.447][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-26 08:36:28.449][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-26 08:36:28.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.454][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-26 08:36:28.456][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-26 08:36:28.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.461][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-26 08:36:28.463][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-26 08:36:28.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.469][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-26 08:36:28.471][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-26 08:36:28.472][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-26 08:36:28.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.478][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-26 08:36:28.479][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-26 08:36:28.481][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-26 08:36:28.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.485][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[2025-09-26 08:36:28.486][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-26 08:36:28.488][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-26 08:36:28.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.494][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-26 08:36:28.495][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-26 08:36:28.497][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-26 08:36:28.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.502][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-26 08:36:28.504][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-26 08:36:28.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.509][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-26 08:36:28.511][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-26 08:36:28.512][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-26 08:36:28.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.518][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-26 08:36:28.520][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-26 08:36:28.521][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-26 08:36:28.523][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-26 08:36:28.524][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-26 08:36:28.526][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-26 08:36:28.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.531][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-26 08:36:28.533][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-26 08:36:28.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.539][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-26 08:36:28.540][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-26 08:36:28.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.546][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-26 08:36:28.548][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-26 08:36:28.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.554][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-26 08:36:28.555][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-26 08:36:28.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.561][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-26 08:36:28.563][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-26 08:36:28.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.568][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-26 08:36:28.570][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-26 08:36:28.575][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-26 08:36:28.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.581][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-26 08:36:28.583][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-26 08:36:28.585][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-26 08:36:28.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.591][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-26 08:36:28.602][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.628][self$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[2025-09-26 08:36:28.630][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.631][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:28.632][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.634][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.635][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.638][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-26 08:36:28.640][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:28.641][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.643][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-26 08:36:28.644][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:28.646][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.647][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.649][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:36:28.649][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-26 08:36:28.649][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-26 08:36:28.649][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-26 08:36:28.649][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-26 08:36:28.650][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:28.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.654][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:28.656][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.657][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.658][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.660][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.661][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:28.663][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:28.664][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.665][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.667][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-26 08:36:28.670][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.671][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-26 08:36:28.673][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.674][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:28.676][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.677][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.679][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.680][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.682][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-26 08:36:28.683][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:28.685][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.686][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-26 08:36:28.688][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:28.689][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.690][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.692][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:36:28.692][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-26 08:36:28.692][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-26 08:36:28.692][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-26 08:36:28.692][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-26 08:36:28.693][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:28.695][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.696][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.698][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:28.699][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.700][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.702][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.703][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.705][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:28.706][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:28.707][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.709][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.710][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-26 08:36:28.713][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.715][self$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[2025-09-26 08:36:28.716][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.718][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:28.719][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.721][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.723][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.724][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.726][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-26 08:36:28.727][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:28.729][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.730][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-26 08:36:28.732][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:28.733][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.735][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.736][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.738][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:28.739][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.740][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.742][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:28.743][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.746][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.755][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.757][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:28.758][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:28.760][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.761][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.763][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-26 08:36:28.766][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.768][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-26 08:36:28.769][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:28.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.774][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.775][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.777][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.779][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-26 08:36:28.780][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:28.782][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.783][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-26 08:36:28.785][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:28.786][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.788][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:28.789][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.791][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-26 08:36:28.792][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.794][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.795][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:28.796][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:28.798][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:28.799][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:28.801][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:28.804][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:28.805][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:28.807][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:28.809][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:36:28.810][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.850][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[2025-09-26 08:36:28.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.883][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[2025-09-26 08:36:28.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.918][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[2025-09-26 08:36:28.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:28.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:28.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:28.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:28.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:28.933][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-26 08:36:28.935][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-26 08:36:28.937][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-26 08:36:28.940][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-26 08:36:28.942][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-26 08:36:28.944][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-26 08:36:28.946][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-26 08:36:28.949][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-26 08:36:28.951][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-26 08:36:28.953][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-26 08:36:28.956][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-26 08:36:28.958][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-26 08:36:28.960][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-26 08:36:28.963][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-26 08:36:28.965][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-26 08:36:28.967][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-26 08:36:28.970][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-26 08:36:28.972][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-26 08:36:28.974][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-26 08:36:28.977][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-26 08:36:28.979][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-26 08:36:28.982][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-26 08:36:28.984][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-26 08:36:28.986][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-26 08:36:28.989][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-26 08:36:28.991][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-26 08:36:28.993][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-26 08:36:28.996][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-26 08:36:28.998][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-26 08:36:29.000][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-26 08:36:29.003][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-26 08:36:29.005][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-26 08:36:29.007][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-26 08:36:29.010][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-26 08:36:29.012][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-26 08:36:29.014][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-26 08:36:29.016][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-26 08:36:29.019][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-26 08:36:29.021][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-26 08:36:29.023][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-26 08:36:29.025][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-26 08:36:29.028][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-26 08:36:29.030][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-26 08:36:29.032][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-26 08:36:29.035][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-26 08:36:29.037][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-26 08:36:29.039][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-26 08:36:29.041][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-26 08:36:29.043][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-26 08:36:29.046][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-26 08:36:29.048][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-26 08:36:29.050][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-26 08:36:29.052][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-26 08:36:29.055][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-26 08:36:29.057][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-26 08:36:29.059][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-26 08:36:29.061][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-26 08:36:29.063][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-26 08:36:29.066][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-26 08:36:29.068][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-26 08:36:29.070][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-26 08:36:29.081][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-26 08:36:29.084][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-26 08:36:29.086][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-26 08:36:29.088][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-26 08:36:29.091][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-26 08:36:29.093][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-26 08:36:29.095][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-26 08:36:29.097][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-26 08:36:29.100][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-26 08:36:29.102][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-26 08:36:29.104][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-26 08:36:29.106][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-26 08:36:29.108][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-26 08:36:29.111][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-26 08:36:29.113][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-26 08:36:29.115][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-26 08:36:29.117][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-26 08:36:29.120][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-26 08:36:29.122][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-26 08:36:29.124][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-26 08:36:29.126][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-26 08:36:29.129][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-26 08:36:29.131][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-26 08:36:29.133][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-09-26 08:36:29.135][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-26 08:36:29.136][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.139][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.259][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[2025-09-26 08:36:29.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.270][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[2025-09-26 08:36:29.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-26 08:36:29.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:29.326][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-09-26 08:36:29.328][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:29.331][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:29.333][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-26 08:36:29.334][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:29.336][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-26 08:36:29.337][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:29.339][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-09-26 08:36:29.340][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:29.342][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-26 08:36:29.343][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-26 08:36:29.345][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-26 08:36:29.346][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:29.348][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-09-26 08:36:29.349][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-09-26 08:36:29.351][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-09-26 08:36:29.352][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-26 08:36:29.354][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-26 08:36:29.354][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-09-26 08:36:29.354][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-09-26 08:36:29.355][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-26 08:36:29.357][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:29.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:29.359][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-26 08:36:29.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-26 08:36:29.362][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-26 08:36:29.363][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-26 08:36:29.365][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-09-26 08:36:29.365][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-09-26 08:36:29.366][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:29.368][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:29.369][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-26 08:36:29.371][self$setPropertyValue]
biodb.DEBUG[2025-09-26 08:36:29.373][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-09-26 08:36:29.375][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-26 08:36:29.377][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-26 08:36:29.380][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-26 08:36:29.382][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-26 08:36:29.387][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:29.388][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-09-26 08:36:29.390][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:29.393][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:36:29.394][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:29.396][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:29.398][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-09-26 08:36:29.399][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-09-26 08:36:29.401][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-09-26 08:36:29.401][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-09-26 08:36:29.402][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-26 08:36:29.403][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-26 08:36:29.413][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-09-26 08:36:29.415][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-09-26 08:36:29.417][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-09-26 08:36:29.419][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:36:29.421][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:29.422][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:29.424][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-09-26 08:36:29.426][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-09-26 08:36:29.427][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-09-26 08:36:29.429][biodb::testThat]
biodb.INFO [2025-09-26 08:36:29.431][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2025-09-26 08:36:29.432][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-26 08:36:29.433][biodb::testThat]
biodb.DEBUG[2025-09-26 08:36:29.436][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-09-26 08:36:29.438][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-09-26 08:36:29.439][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-09-26 08:36:29.444][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:29.446][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:29.448][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:36:29.451][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:29.452][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:36:29.454][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:36:29.456][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:36:29.457][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:36:29.459][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:36:29.460][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-09-26 08:36:29.461][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-09-26 08:36:29.464][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-09-26 08:36:29.466][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-26 08:36:29.468][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:29.470][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-09-26 08:36:29.473][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-09-26 08:36:29.475][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-26 08:36:29.478][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-09-26 08:36:29.479][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-09-26 08:36:29.481][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-26 08:36:29.483][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-26 08:36:29.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:29.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:29.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:29.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:29.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:29.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:29.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-26 08:36:29.504][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:29.505][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:29.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.508][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:29.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:29.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.516][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:29.517][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:29.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.520][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.522][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:29.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:29.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.529][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.531][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.534][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.536][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.549][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.551][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.554][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.564][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.569][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.579][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.581][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:29.615][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:29.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.618][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.621][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:29.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:29.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.628][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:29.630][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:29.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.633][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.635][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:29.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:29.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.642][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.644][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.647][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.650][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.656][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.658][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.661][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.663][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.670][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:29.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:29.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.675][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.677][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:29.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:29.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.683][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:29.685][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:29.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.688][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:29.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:29.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.697][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:29.699][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:29.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:29.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:29.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:29.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:29.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.716][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:29.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:29.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.724][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:29.726][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:29.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.729][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:29.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:29.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.738][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:29.739][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:29.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.742][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.744][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:29.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:29.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:29.752][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:29.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.755][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.757][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:29.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:29.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.764][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:36:29.765][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.768][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.786][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:36:29.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:29.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:29.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:29.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:29.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:29.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:29.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.814][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.820][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.827][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:29.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.834][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.841][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.847][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:29.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:29.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:29.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.890][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.896][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:29.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.908][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.914][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:29.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.927][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:29.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.947][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:29.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:29.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:29.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:29.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.969][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:29.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:29.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:29.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:29.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.983][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:29.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:29.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:29.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:29.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:29.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:29.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:29.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:29.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:30.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:30.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:30.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:30.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.036][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.042][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.049][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.083][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.096][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.103][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.109][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.116][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.123][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.130][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.157][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.165][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.173][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:36:30.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.205][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:36:30.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.235][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.240][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.247][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:30.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:30.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.253][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:30.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:30.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.265][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:30.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:30.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:30.305][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-09-26 08:36:30.307][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.313][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.318][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.333][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:30.340][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:36:30.341][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-09-26 08:36:30.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:30.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:30.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:30.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:30.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:30.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:30.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:30.358][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-09-26 08:36:30.359][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-26 08:36:30.362][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:30.364][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-09-26 08:36:30.367][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-09-26 08:36:30.369][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-09-26 08:36:30.371][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-09-26 08:36:30.372][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-09-26 08:36:30.374][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-26 08:36:30.376][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-26 08:36:30.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:30.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:30.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:30.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:30.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:30.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:30.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-26 08:36:30.396][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.398][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.400][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.408][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.409][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.412][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.414][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.420][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.421][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.424][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.426][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.432][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.433][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.436][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.438][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.444][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.445][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.448][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.456][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.457][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.460][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.467][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.469][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.472][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.474][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.479][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.481][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.483][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.486][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.501][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.503][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.506][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.508][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.514][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.515][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.518][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.520][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.526][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:30.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:30.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.530][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:30.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:30.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.537][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:30.539][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:30.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.541][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:30.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:30.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.549][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.551][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.553][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.561][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.565][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.573][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.574][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.577][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.584][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.586][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.588][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.590][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.596][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.600][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.602][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.608][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:36:30.609][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.612][ef$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.614][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-09-26 08:36:30.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:30.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:30.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.636][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.642][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.656][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-26 08:36:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.662][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.668][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.674][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-26 08:36:30.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-26 08:36:30.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-26 08:36:30.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.718][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.724][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-26 08:36:30.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.730][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.735][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.741][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-26 08:36:30.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.746][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.752][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.757][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-26 08:36:30.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.763][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.769][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.775][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:30.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:30.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:30.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:30.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.787][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:30.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:30.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.793][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-26 08:36:30.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-26 08:36:30.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:30.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:30.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:30.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:30.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-26 08:36:30.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-26 08:36:30.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.842][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.848][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-26 08:36:30.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-26 08:36:30.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.893][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.899][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.904][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-26 08:36:30.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.910][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.915][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.921][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-26 08:36:30.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.927][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.932][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.938][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-26 08:36:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-26 08:36:30.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.943][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:36:30.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.977][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-26 08:36:30.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-26 08:36:30.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.991][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:30.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:30.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:30.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:30.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:31.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:31.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-26 08:36:31.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-26 08:36:31.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.016][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:31.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:31.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.022][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:31.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:31.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:31.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:31.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.034][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:31.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-26 08:36:31.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:31.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:31.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:31.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:31.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:31.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:31.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:31.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:31.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:31.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:31.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-26 08:36:31.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-26 08:36:31.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:31.078][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-09-26 08:36:31.080][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.086][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.093][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.100][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:31.106][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:36:31.108][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:36:31.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:31.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:31.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:31.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:31.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:31.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:31.124][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[2025-09-26 08:36:31.141][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-09-26 08:36:31.143][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-09-26 08:36:31.145][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-09-26 08:36:31.147][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:31.150][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:31.153][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:36:31.155][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:31.156][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:36:31.159][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:36:31.160][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:36:31.162][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:36:31.163][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:36:31.165][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-09-26 08:36:31.167][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-09-26 08:36:31.169][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.176][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.183][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.189][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.196][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.202][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.209][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:31.215][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:36:31.216][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-09-26 08:36:31.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:31.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:31.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:31.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:31.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:31.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:31.231][FUN] Functions in observer BiodbConfig: [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[2025-09-26 08:36:31.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.239][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.245][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.251][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.257][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.263][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.270][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:31.276][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-09-26 08:36:31.277][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-09-26 08:36:31.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:31.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:31.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:31.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:31.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:31.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:31.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-26 08:36:31.300][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-09-26 08:36:31.301][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-09-26 08:36:31.311][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-09-26 08:36:31.314][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:31.316][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:31.318][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-09-26 08:36:31.321][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-26 08:36:31.322][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-09-26 08:36:31.325][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-09-26 08:36:31.326][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-09-26 08:36:31.328][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-09-26 08:36:31.329][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-09-26 08:36:31.330][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-09-26 08:36:31.332][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-09-26 08:36:31.334][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.340][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.346][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.352][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.358][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.369][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:31.375][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-09-26 08:36:31.376][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-09-26 08:36:31.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:31.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:31.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:31.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:31.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:31.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:31.391][FUN] Functions in observer BiodbConfig: [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[2025-09-26 08:36:31.393][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.398][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.404][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.416][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.422][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-26 08:36:31.428][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-26 08:36:31.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-26 08:36:31.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-26 08:36:31.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-26 08:36:31.433][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-09-26 08:36:31.435][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-09-26 08:36:31.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-26 08:36:31.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:31.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:31.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:31.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:31.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:31.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-26 08:36:31.459][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-09-26 08:36:31.461][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-09-26 08:36:31.483][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-09-26 08:36:31.484][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-26 08:36:31.486][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-26 08:36:31.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-26 08:36:31.488][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-26 08:36:31.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-26 08:36:31.491][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-26 08:36:31.492][FUN] Functions in observer 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
13.180 0.618 103.758