Pierrick Roger
| Snapshot Date: 2025-06-11 13:25 -0400 (Wed, 11 Jun 2025) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: devel |
| git_last_commit: 9920d92 |
| git_last_commit_date: 2025-04-15 12:42:50 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-06-12 12:12 -0400 (Thu, 12 Jun 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4795 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six" | 4536 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4574 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4513 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4480 |
| 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 205/2309 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.15.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| taishan | 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: 1.15.0 |
| 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_1.15.0.tar.gz |
| StartedAt: 2025-06-10 05:13:50 -0000 (Tue, 10 Jun 2025) |
| EndedAt: 2025-06-10 05:31:23 -0000 (Tue, 10 Jun 2025) |
| EllapsedTime: 1053.3 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_1.15.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.15.0’
* 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-3.22-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-3.22-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-4.5.0/site-library’
* installing *source* package ‘biodbHmdb’ ...
** this is package ‘biodbHmdb’ version ‘1.15.0’
** 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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/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-4.5.0/lib -L/usr/local/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -L/home/biocbuild/R/R-4.5.0/lib -lR
installing to /home/biocbuild/R/R-4.5.0/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 version 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
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 [2025-06-10 05:31:06.010][biodb::testContext]
biodb.INFO [2025-06-10 05:31:06.013][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:06.015][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-06-10 05:31:06.016][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:06.017][biodb::testContext]
biodb.INFO [2025-06-10 05:31:06.020][biodb::testThat]
biodb.INFO [2025-06-10 05:31:06.021][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2025-06-10 05:31:06.023][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:06.024][biodb::testThat]
biodb.INFO [2025-06-10 05:31:06.165][biodb::testContext]
biodb.INFO [2025-06-10 05:31:06.167][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:06.168][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-06-10 05:31:06.170][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:06.171][biodb::testContext]
biodb.INFO [2025-06-10 05:31:06.181][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.0.
biodb.DEBUG[2025-06-10 05:31:06.184][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-06-10 05:31:06.195][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:06.197][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-06-10 05:31:06.198][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-06-10 05:31:06.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.204][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-06-10 05:31:06.243][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-06-10 05:31:06.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.249][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-06-10 05:31:06.251][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-06-10 05:31:06.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.257][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-06-10 05:31:06.259][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-06-10 05:31:06.261][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-06-10 05:31:06.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.267][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-06-10 05:31:06.268][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-06-10 05:31:06.270][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-06-10 05:31:06.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.276][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-06-10 05:31:06.277][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-06-10 05:31:06.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.283][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-06-10 05:31:06.285][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-06-10 05:31:06.287][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-06-10 05:31:06.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.293][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-06-10 05:31:06.295][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-06-10 05:31:06.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.302][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-06-10 05:31:06.303][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-06-10 05:31:06.305][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-06-10 05:31:06.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.311][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-06-10 05:31:06.313][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-06-10 05:31:06.315][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-06-10 05:31:06.317][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-06-10 05:31:06.318][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-06-10 05:31:06.321][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-06-10 05:31:06.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.328][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-06-10 05:31:06.330][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-06-10 05:31:06.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.337][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-06-10 05:31:06.339][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-06-10 05:31:06.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.345][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-06-10 05:31:06.346][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-06-10 05:31:06.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.352][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-06-10 05:31:06.353][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-06-10 05:31:06.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.358][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-06-10 05:31:06.360][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-06-10 05:31:06.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.365][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-06-10 05:31:06.366][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-06-10 05:31:06.372][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-06-10 05:31:06.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.377][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-06-10 05:31:06.379][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-06-10 05:31:06.380][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-06-10 05:31:06.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.389][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-06-10 05:31:06.439][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.464][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-06-10 05:31:06.465][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.467][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:06.469][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.470][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.472][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.473][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.475][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-10 05:31:06.476][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:06.478][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.479][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-06-10 05:31:06.481][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:06.482][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.484][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.485][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:06.485][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-10 05:31:06.485][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-10 05:31:06.485][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-10 05:31:06.485][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-10 05:31:06.487][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:06.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.491][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:06.492][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.494][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.495][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.497][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.499][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:06.500][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:06.502][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.512][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.514][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-06-10 05:31:06.517][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.519][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-06-10 05:31:06.520][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.522][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:06.523][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.525][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.526][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.528][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.530][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-10 05:31:06.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:06.533][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.535][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-06-10 05:31:06.536][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:06.538][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.539][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.541][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:06.541][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-10 05:31:06.541][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-10 05:31:06.541][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-10 05:31:06.541][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-10 05:31:06.542][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:06.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.546][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:06.548][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.549][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.551][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.552][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.554][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:06.555][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:06.557][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.558][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.560][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-06-10 05:31:06.563][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.564][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-06-10 05:31:06.566][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.568][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:06.569][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.571][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.572][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.574][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.575][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-10 05:31:06.577][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:06.578][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.580][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-06-10 05:31:06.581][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:06.583][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.584][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.586][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.587][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:06.589][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.592][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:06.593][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.596][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.598][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.599][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:06.601][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:06.602][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.603][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.605][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-06-10 05:31:06.608][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.609][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-06-10 05:31:06.611][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.612][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:06.614][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.615][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.616][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.618][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.619][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-10 05:31:06.620][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:06.622][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.623][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-06-10 05:31:06.625][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:06.626][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.628][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:06.629][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.631][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:06.632][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.634][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.635][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:06.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:06.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:06.639][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:06.641][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.642][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:06.643][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:06.645][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:06.646][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:06.651][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:06.653][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.654][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[2025-06-10 05:31:06.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.661][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[2025-06-10 05:31:06.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.668][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[2025-06-10 05:31:06.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.675][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[2025-06-10 05:31:06.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.714][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[2025-06-10 05:31:06.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:06.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:06.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:06.775][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-06-10 05:31:06.782][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-06-10 05:31:06.784][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-06-10 05:31:06.795][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-06-10 05:31:06.797][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-10 05:31:06.800][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-10 05:31:06.802][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-06-10 05:31:06.804][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-06-10 05:31:06.807][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-06-10 05:31:06.809][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-10 05:31:06.811][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-10 05:31:06.814][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-06-10 05:31:06.816][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-06-10 05:31:06.818][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-06-10 05:31:06.821][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-06-10 05:31:06.823][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-10 05:31:06.825][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-06-10 05:31:06.827][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-06-10 05:31:06.830][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-10 05:31:06.832][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-06-10 05:31:06.834][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-06-10 05:31:06.836][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-06-10 05:31:06.839][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-06-10 05:31:06.841][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-06-10 05:31:06.844][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-06-10 05:31:06.846][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-06-10 05:31:06.848][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-06-10 05:31:06.850][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-06-10 05:31:06.853][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-06-10 05:31:06.855][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-06-10 05:31:06.857][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-06-10 05:31:06.860][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-06-10 05:31:06.862][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-06-10 05:31:06.864][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-06-10 05:31:06.867][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-06-10 05:31:06.869][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-06-10 05:31:06.871][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-06-10 05:31:06.874][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-06-10 05:31:06.876][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-06-10 05:31:06.878][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-06-10 05:31:06.880][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-06-10 05:31:06.883][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-06-10 05:31:06.885][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-06-10 05:31:06.887][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-06-10 05:31:06.889][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-06-10 05:31:06.892][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-06-10 05:31:06.894][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-06-10 05:31:06.896][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-06-10 05:31:06.899][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-06-10 05:31:06.901][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-06-10 05:31:06.904][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-06-10 05:31:06.906][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-06-10 05:31:06.908][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-06-10 05:31:06.910][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-06-10 05:31:06.913][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-06-10 05:31:06.915][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-06-10 05:31:06.917][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-06-10 05:31:06.920][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-06-10 05:31:06.923][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-06-10 05:31:06.925][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-06-10 05:31:06.927][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-06-10 05:31:06.930][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-06-10 05:31:06.932][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-06-10 05:31:06.934][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-06-10 05:31:06.937][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-06-10 05:31:06.939][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-06-10 05:31:06.941][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-10 05:31:06.943][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-10 05:31:06.946][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-06-10 05:31:06.948][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-06-10 05:31:06.950][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-06-10 05:31:06.953][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-06-10 05:31:06.955][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-06-10 05:31:06.957][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-06-10 05:31:06.960][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-06-10 05:31:06.962][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-06-10 05:31:06.965][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-06-10 05:31:06.967][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-06-10 05:31:06.970][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-06-10 05:31:06.972][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-06-10 05:31:06.974][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-06-10 05:31:06.976][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-06-10 05:31:06.978][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-06-10 05:31:06.987][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-06-10 05:31:06.990][initialize] This is biodb version 1.17.0.
biodb.DEBUG[2025-06-10 05:31:06.994][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:06.996][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:06.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:06.998][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.000][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[2025-06-10 05:31:07.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.187][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[2025-06-10 05:31:07.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:07.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:07.209][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-06-10 05:31:07.225][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:07.228][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:07.230][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-06-10 05:31:07.232][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:07.233][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:07.235][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:07.236][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-06-10 05:31:07.238][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:07.240][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:07.241][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-06-10 05:31:07.243][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:07.245][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:07.246][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-06-10 05:31:07.248][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-06-10 05:31:07.250][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-06-10 05:31:07.251][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:07.253][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:07.253][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-06-10 05:31:07.253][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-06-10 05:31:07.255][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-06-10 05:31:07.256][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:07.258][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:07.259][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:07.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:07.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:07.264][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:07.265][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-06-10 05:31:07.265][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-06-10 05:31:07.267][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:07.268][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:07.270][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:07.271][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:07.281][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-06-10 05:31:07.284][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-10 05:31:07.287][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-10 05:31:07.290][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-10 05:31:07.293][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-10 05:31:07.327][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:07.329][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-06-10 05:31:07.335][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:07.342][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:07.348][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:07.349][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:07.351][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-06-10 05:31:07.353][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-06-10 05:31:07.355][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-06-10 05:31:07.355][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-06-10 05:31:07.357][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:07.358][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:07.359][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-06-10 05:31:07.361][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-06-10 05:31:07.362][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:07.401][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:07.403][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:07.404][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:07.407][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:07.409][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:07.410][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-06-10 05:31:07.421][biodb::testThat]
biodb.INFO [2025-06-10 05:31:07.422][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-06-10 05:31:07.424][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:07.425][biodb::testThat]
biodb.TRACE[2025-06-10 05:31:07.432][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-06-10 05:31:07.435][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-06-10 05:31:07.440][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-06-10 05:31:07.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:07.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:07.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:07.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:07.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:07.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:07.467][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.TRACE[2025-06-10 05:31:07.483][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:07.485][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:07.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.488][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:07.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:07.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.516][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:07.518][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:07.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.521][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.562][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:07.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:07.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.568][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.570][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.573][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.575][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.582][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.584][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.586][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.589][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.600][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.608][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.610][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.613][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:07.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:07.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.626][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:07.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:07.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.635][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:07.636][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:07.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.639][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.641][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:07.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:07.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.659][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.662][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.665][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.667][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.673][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.675][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.677][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.680][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.686][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:07.688][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:07.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.690][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:07.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:07.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.698][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:07.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:07.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.703][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:07.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:07.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.712][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:07.713][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:07.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.716][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:07.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:07.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.725][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:07.727][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:07.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.729][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:07.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:07.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.739][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:07.740][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:07.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.743][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:07.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:07.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.752][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:07.753][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:07.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.756][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:07.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:07.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.764][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:07.766][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:07.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.769][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.771][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:07.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:07.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.777][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:07.779][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.782][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.784][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:07.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:07.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:07.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:07.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:07.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:07.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:07.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.861][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.867][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.873][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:07.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.888][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.894][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.900][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:07.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:07.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.956][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:07.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.968][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.975][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:07.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.981][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.987][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.993][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:07.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:07.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.005][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.011][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.017][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.023][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.028][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:08.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:08.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:08.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:08.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:08.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:08.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.073][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.080][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.086][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.136][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.142][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.148][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.154][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.160][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.165][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.171][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:08.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:08.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.176][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:08.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:08.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:08.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:08.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.188][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:08.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.211][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:08.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:08.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.272][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.278][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.290][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:08.339][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-06-10 05:31:08.343][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-10 05:31:08.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-10 05:31:08.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-10 05:31:08.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-10 05:31:08.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.354][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-06-10 05:31:08.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-06-10 05:31:08.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.361][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-06-10 05:31:08.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-06-10 05:31:08.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.452][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.459][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.466][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:08.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.501][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.502][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.505][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:08.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:08.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.531][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.537][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.543][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.545][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.548][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.550][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:08.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.592][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.593][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.596][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:08.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.613][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.619][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.624][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.630][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.631][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.634][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.636][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:08.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.673][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:08.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.691][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.697][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.703][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.708][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.710][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.712][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.714][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:08.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.731][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.742][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.749][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.750][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.753][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:08.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:08.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.771][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.786][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.792][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.798][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.799][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.802][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.803][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:08.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:08.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.821][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.827][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.839][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.841][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.843][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:08.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:08.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.862][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.874][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.879][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.881][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.884][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.886][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:08.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.924][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.926][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.929][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:08.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.968][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.970][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.973][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.975][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:08.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.992][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:08.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:08.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:08.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:08.998][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.018][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.020][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.022][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.024][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.040][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.046][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.052][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.058][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.059][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.062][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.064][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.081][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.087][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.093][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.099][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.101][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.103][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.105][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.139][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.141][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.144][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.175][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.181][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.182][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.185][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.186][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.204][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.210][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.217][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.223][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.233][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.236][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.238][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.254][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:09.256][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:09.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.259][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.265][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.267][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.270][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.277][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.278][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.281][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.288][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.293][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.300][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.302][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.305][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.312][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.314][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.317][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.324][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.326][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.329][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.336][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.338][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.341][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.349][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:09.351][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:09.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.354][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.361][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:09.363][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:09.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.366][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.372][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.374][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.377][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.386][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.389][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.395][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:09.397][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:09.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.400][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.407][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:09.409][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:09.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.412][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.418][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:09.420][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:09.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.423][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.429][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:09.431][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:09.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.434][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.441][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:09.442][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:09.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.445][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.456][ef$get] fields variable is a list.
biodb.INFO [2025-06-10 05:31:09.474][biodb::testThat]
biodb.INFO [2025-06-10 05:31:09.476][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-06-10 05:31:09.477][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:09.478][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:09.499][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-06-10 05:31:09.509][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-06-10 05:31:09.516][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:09.519][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-06-10 05:31:09.522][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-06-10 05:31:09.524][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-10 05:31:09.528][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-06-10 05:31:09.530][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-06-10 05:31:09.580][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-06-10 05:31:09.583][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-06-10 05:31:09.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:09.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:09.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:09.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:09.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:09.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:09.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-10 05:31:09.608][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:09.610][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:09.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.613][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:09.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.622][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:09.623][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:09.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.626][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.629][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:09.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.635][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.637][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.640][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.642][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.648][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.650][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.653][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.655][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.661][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.665][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.674][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.675][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.678][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.686][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:09.688][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:09.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.691][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:09.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:09.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.714][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:09.716][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:09.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.719][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.721][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:09.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:09.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.727][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.729][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.732][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.734][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.740][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.742][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.744][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.746][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.753][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:09.754][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:09.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.757][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.759][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:09.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:09.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.766][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.768][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.770][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:09.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:09.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.780][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.783][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:09.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.791][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:09.793][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:09.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.796][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:09.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:09.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.804][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:09.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:09.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.808][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:09.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:09.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.816][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:09.818][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:09.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.820][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.822][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:09.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:09.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.832][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.834][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:09.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:09.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.839][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:09.841][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.844][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.846][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:09.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:09.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:09.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:09.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:09.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:09.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:09.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.868][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.874][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.881][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:09.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.886][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.892][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.897][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:09.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:09.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:09.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.943][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:09.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.960][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.965][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:09.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.982][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.987][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:09.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.993][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:09.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:09.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.004][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:10.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:10.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:10.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:10.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:10.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:10.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:10.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:10.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:10.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.063][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:10.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:10.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.068][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:10.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:10.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.074][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:10.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:10.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:10.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:10.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:10.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:10.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.115][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:10.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:10.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.122][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:10.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:10.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.134][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:10.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:10.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.139][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.144][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.149][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.155][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:10.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:10.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:10.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:10.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.166][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:10.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:10.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.171][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:10.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.194][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:10.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:10.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.200][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.211][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.228][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:10.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:10.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:10.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:10.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:10.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:10.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.244][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:10.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:10.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:10.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:10.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:10.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:10.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:10.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:10.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:10.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:10.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:10.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:10.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.282][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-06-10 05:31:10.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-06-10 05:31:10.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-06-10 05:31:10.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-06-10 05:31:10.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-06-10 05:31:10.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-06-10 05:31:10.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-06-10 05:31:10.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-10 05:31:10.309][biodb::testThat]
biodb.INFO [2025-06-10 05:31:10.310][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-06-10 05:31:10.312][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:10.313][biodb::testThat]
biodb.TRACE[2025-06-10 05:31:10.317][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.326][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.328][ef$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.330][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-06-10 05:31:10.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.385][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-06-10 05:31:10.387][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-06-10 05:31:10.388][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-06-10 05:31:10.389][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-06-10 05:31:10.391][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.393][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.395][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:10.397][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.398][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:10.400][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:10.401][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:10.403][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:10.404][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:10.405][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-06-10 05:31:10.407][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-06-10 05:31:10.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.420][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.425][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.430][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:10.431][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-06-10 05:31:10.433][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-06-10 05:31:10.447][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.449][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.452][ef$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.453][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-06-10 05:31:10.468][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.474][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.487][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[2025-06-10 05:31:10.571][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-06-10 05:31:10.572][private$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[2025-06-10 05:31:10.574][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-06-10 05:31:10.594][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.596][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.598][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:10.600][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.601][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:10.623][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:10.625][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:10.626][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:10.627][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:10.629][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-06-10 05:31:10.630][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-06-10 05:31:10.632][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.638][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.643][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.648][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:10.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:10.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.653][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:10.655][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-06-10 05:31:10.656][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-06-10 05:31:10.671][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.673][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.682][ef$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.684][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-06-10 05:31:10.699][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.705][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.710][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.718][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-06-10 05:31:10.720][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-06-10 05:31:10.722][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-06-10 05:31:10.723][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-06-10 05:31:10.725][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.727][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.729][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:10.731][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.732][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:10.734][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:10.735][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:10.736][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:10.738][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:10.739][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-06-10 05:31:10.740][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-06-10 05:31:10.743][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.748][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.754][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.759][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:10.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.764][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:10.766][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-06-10 05:31:10.767][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-06-10 05:31:10.786][biodb::testThat]
biodb.INFO [2025-06-10 05:31:10.787][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-06-10 05:31:10.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:10.790][biodb::testThat]
biodb.TRACE[2025-06-10 05:31:10.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.834][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-06-10 05:31:10.835][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-06-10 05:31:10.836][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-06-10 05:31:10.839][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.841][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.843][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:10.845][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:10.846][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:10.848][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:10.849][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:10.850][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:10.852][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:10.853][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-06-10 05:31:10.854][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-06-10 05:31:10.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.862][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:10.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:10.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:10.885][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:10.886][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-06-10 05:31:10.905][biodb::testThat]
biodb.INFO [2025-06-10 05:31:10.906][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-06-10 05:31:10.908][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:10.909][biodb::testThat]
biodb.TRACE[2025-06-10 05:31:10.936][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-10 05:31:10.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-10 05:31:10.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.942][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-10 05:31:10.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-10 05:31:10.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.947][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-06-10 05:31:10.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-06-10 05:31:10.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:10.952][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-06-10 05:31:10.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-06-10 05:31:10.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:10.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:11.029][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-10 05:31:11.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-10 05:31:11.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:11.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:11.036][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-10 05:31:11.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-10 05:31:11.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:11.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-06-10 05:31:11.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-06-10 05:31:11.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:11.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:11.048][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-06-10 05:31:11.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-06-10 05:31:11.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:11.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-10 05:31:11.063][biodb::testThat]
biodb.INFO [2025-06-10 05:31:11.078][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-06-10 05:31:11.080][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:11.081][biodb::testThat]
biodb.INFO [2025-06-10 05:31:11.092][biodb::testThat]
biodb.INFO [2025-06-10 05:31:11.094][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-06-10 05:31:11.095][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:11.096][biodb::testThat]
biodb.INFO [2025-06-10 05:31:11.107][biodb::testThat]
biodb.INFO [2025-06-10 05:31:11.109][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-06-10 05:31:11.110][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:11.112][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:11.116][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-06-10 05:31:13.507][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-06-10 05:31:14.063][biodb::testThat]
biodb.INFO [2025-06-10 05:31:14.064][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-06-10 05:31:14.066][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:14.067][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:15.444][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-06-10 05:31:15.973][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:15.975][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:15.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:15.978][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:15.979][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:15.981][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:15.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:15.983][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:15.985][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:15.986][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:15.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:15.989][ef$get] fields variable is a list.
biodb.INFO [2025-06-10 05:31:15.991][biodb::testThat]
biodb.INFO [2025-06-10 05:31:15.992][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-06-10 05:31:15.993][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:15.995][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:15.997][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-06-10 05:31:16.068][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-06-10 05:31:16.071][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.074][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-06-10 05:31:16.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-06-10 05:31:16.116][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-06-10 05:31:16.117][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-06-10 05:31:16.119][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-06-10 05:31:16.122][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.124][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-06-10 05:31:16.126][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-06-10 05:31:16.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:16.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:16.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:16.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-10 05:31:16.147][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.154][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:16.198][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-06-10 05:31:16.199][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-06-10 05:31:16.222][biodb::testThat]
biodb.INFO [2025-06-10 05:31:16.224][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-06-10 05:31:16.225][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:16.227][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:16.238][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-06-10 05:31:16.240][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-06-10 05:31:16.241][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-06-10 05:31:16.244][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.246][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-06-10 05:31:16.249][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-06-10 05:31:16.251][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-06-10 05:31:16.252][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-06-10 05:31:16.254][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-06-10 05:31:16.291][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.293][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-06-10 05:31:16.295][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-06-10 05:31:16.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:16.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:16.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:16.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.310][FUN] Functions in observer BiodbConfig: [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[2025-06-10 05:31:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.318][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:16.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:16.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:16.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:16.358][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-06-10 05:31:16.359][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-06-10 05:31:16.360][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-06-10 05:31:16.378][biodb::testThat]
biodb.INFO [2025-06-10 05:31:16.380][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-06-10 05:31:16.381][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:16.382][biodb::testThat]
biodb.INFO [2025-06-10 05:31:16.414][biodb::testThat]
biodb.INFO [2025-06-10 05:31:16.415][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-06-10 05:31:16.417][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:16.418][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:16.421][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.424][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.426][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:16.428][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.430][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:16.432][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:16.433][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:16.435][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:16.437][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-06-10 05:31:16.448][biodb::testThat]
biodb.INFO [2025-06-10 05:31:16.449][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-06-10 05:31:16.451][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:16.461][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:16.465][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.468][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.470][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:16.473][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:16.474][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:16.477][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:16.478][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:16.480][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:16.482][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-06-10 05:31:16.494][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:16.495][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:16.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.498][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.499][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:16.501][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:16.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.504][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:16.505][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:16.507][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:16.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:16.509][ef$get] fields variable is a list.
biodb.INFO [2025-06-10 05:31:16.511][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-06-10 05:31:16.512][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-06-10 05:31:16.524][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-06-10 05:31:16.525][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-06-10 05:31:16.527][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:16.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:16.529][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.532][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.533][FUN] Functions in observer BiodbConfig: [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 [2025-06-10 05:31:16.538][biodb::testContext]
biodb.INFO [2025-06-10 05:31:16.540][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:16.541][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-06-10 05:31:16.543][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:16.544][biodb::testContext]
biodb.INFO [2025-06-10 05:31:16.549][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.0.
biodb.DEBUG[2025-06-10 05:31:16.552][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-06-10 05:31:16.557][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:16.559][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-06-10 05:31:16.560][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-06-10 05:31:16.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.566][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-06-10 05:31:16.568][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-06-10 05:31:16.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.574][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-06-10 05:31:16.575][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-06-10 05:31:16.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.581][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-06-10 05:31:16.582][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-06-10 05:31:16.584][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-06-10 05:31:16.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.590][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-06-10 05:31:16.591][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-06-10 05:31:16.593][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-06-10 05:31:16.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.599][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-06-10 05:31:16.601][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-06-10 05:31:16.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.606][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-06-10 05:31:16.608][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-06-10 05:31:16.609][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-06-10 05:31:16.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.614][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-06-10 05:31:16.616][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-06-10 05:31:16.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.621][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-06-10 05:31:16.622][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-06-10 05:31:16.624][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-06-10 05:31:16.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.637][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-06-10 05:31:16.639][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-06-10 05:31:16.641][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-06-10 05:31:16.642][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-06-10 05:31:16.643][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-06-10 05:31:16.645][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-06-10 05:31:16.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.650][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-06-10 05:31:16.651][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-06-10 05:31:16.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.657][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-06-10 05:31:16.658][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-06-10 05:31:16.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.663][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-06-10 05:31:16.665][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-06-10 05:31:16.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.670][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-06-10 05:31:16.672][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-06-10 05:31:16.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.679][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-06-10 05:31:16.680][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-06-10 05:31:16.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.685][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-06-10 05:31:16.687][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-06-10 05:31:16.693][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-06-10 05:31:16.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.698][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-06-10 05:31:16.700][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-06-10 05:31:16.701][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-06-10 05:31:16.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.707][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-06-10 05:31:16.710][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.712][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-06-10 05:31:16.714][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.716][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:16.717][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.719][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.720][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.722][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.723][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-10 05:31:16.724][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:16.726][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.727][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-06-10 05:31:16.729][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:16.730][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.732][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.733][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:16.733][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-10 05:31:16.733][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-10 05:31:16.733][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-10 05:31:16.733][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-10 05:31:16.735][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:16.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.739][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:16.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.743][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.744][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.746][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:16.747][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:16.749][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.750][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.752][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-06-10 05:31:16.755][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.756][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-06-10 05:31:16.758][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.759][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:16.760][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.762][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.763][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.765][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.766][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-10 05:31:16.768][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:16.769][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.770][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-06-10 05:31:16.772][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:16.773][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.775][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.776][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:16.776][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-10 05:31:16.776][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-10 05:31:16.776][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-10 05:31:16.776][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-10 05:31:16.778][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:16.779][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.780][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.782][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:16.783][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.784][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.785][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.787][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.788][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:16.790][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:16.791][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.792][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.794][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-06-10 05:31:16.797][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.798][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-06-10 05:31:16.807][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.809][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:16.810][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.812][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.813][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.815][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.816][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-10 05:31:16.818][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:16.819][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.821][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-06-10 05:31:16.822][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:16.824][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.825][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.826][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:16.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.831][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.832][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:16.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.835][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.836][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.837][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.839][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:16.840][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:16.842][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.843][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.845][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-06-10 05:31:16.847][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.849][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-06-10 05:31:16.851][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.852][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:16.854][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.855][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.857][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.858][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.860][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-10 05:31:16.861][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:16.863][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.864][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-06-10 05:31:16.866][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:16.867][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.869][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:16.870][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.872][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:16.873][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.875][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.876][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:16.878][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:16.879][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:16.880][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:16.882][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.883][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:16.884][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:16.886][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:16.887][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:16.889][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:16.890][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.935][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[2025-06-10 05:31:16.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.941][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[2025-06-10 05:31:16.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.948][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[2025-06-10 05:31:16.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.954][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[2025-06-10 05:31:16.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.960][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[2025-06-10 05:31:16.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:16.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.986][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[2025-06-10 05:31:16.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.993][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[2025-06-10 05:31:16.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:16.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:16.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:16.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:16.999][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[2025-06-10 05:31:17.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.005][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[2025-06-10 05:31:17.007][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-06-10 05:31:17.009][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-06-10 05:31:17.011][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-06-10 05:31:17.013][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-06-10 05:31:17.015][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-10 05:31:17.018][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-10 05:31:17.020][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-06-10 05:31:17.022][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-06-10 05:31:17.024][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-06-10 05:31:17.026][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-10 05:31:17.028][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-10 05:31:17.030][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-06-10 05:31:17.032][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-06-10 05:31:17.034][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-06-10 05:31:17.036][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-06-10 05:31:17.038][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-10 05:31:17.040][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-06-10 05:31:17.042][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-06-10 05:31:17.044][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-10 05:31:17.046][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-06-10 05:31:17.048][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-06-10 05:31:17.050][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-06-10 05:31:17.052][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-06-10 05:31:17.054][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-06-10 05:31:17.056][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-06-10 05:31:17.058][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-06-10 05:31:17.060][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-06-10 05:31:17.062][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-06-10 05:31:17.064][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-06-10 05:31:17.066][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-06-10 05:31:17.068][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-06-10 05:31:17.070][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-06-10 05:31:17.072][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-06-10 05:31:17.074][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-06-10 05:31:17.076][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-06-10 05:31:17.078][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-06-10 05:31:17.080][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-06-10 05:31:17.082][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-06-10 05:31:17.084][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-06-10 05:31:17.086][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-06-10 05:31:17.089][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-06-10 05:31:17.091][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-06-10 05:31:17.093][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-06-10 05:31:17.095][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-06-10 05:31:17.097][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-06-10 05:31:17.099][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-06-10 05:31:17.101][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-06-10 05:31:17.103][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-06-10 05:31:17.105][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-06-10 05:31:17.107][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-06-10 05:31:17.109][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-06-10 05:31:17.111][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-06-10 05:31:17.113][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-06-10 05:31:17.115][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-06-10 05:31:17.117][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-06-10 05:31:17.127][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-06-10 05:31:17.129][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-06-10 05:31:17.131][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-06-10 05:31:17.133][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-06-10 05:31:17.135][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-06-10 05:31:17.137][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-06-10 05:31:17.139][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-06-10 05:31:17.141][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-06-10 05:31:17.143][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-06-10 05:31:17.145][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-06-10 05:31:17.147][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-06-10 05:31:17.149][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-10 05:31:17.151][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-10 05:31:17.153][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-06-10 05:31:17.155][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-06-10 05:31:17.157][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-06-10 05:31:17.159][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-06-10 05:31:17.161][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-06-10 05:31:17.163][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-06-10 05:31:17.165][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-06-10 05:31:17.167][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-06-10 05:31:17.169][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-06-10 05:31:17.171][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-06-10 05:31:17.173][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-06-10 05:31:17.175][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-06-10 05:31:17.177][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-06-10 05:31:17.179][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-06-10 05:31:17.181][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-06-10 05:31:17.183][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-06-10 05:31:17.185][initialize] This is biodb version 1.17.0.
biodb.DEBUG[2025-06-10 05:31:17.187][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:17.188][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.190][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:17.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:17.370][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-06-10 05:31:17.372][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:17.376][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:17.377][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-06-10 05:31:17.379][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:17.381][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:17.382][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:17.384][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-06-10 05:31:17.385][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:17.387][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:17.389][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-06-10 05:31:17.390][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:17.392][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:17.394][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-06-10 05:31:17.395][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-06-10 05:31:17.397][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-06-10 05:31:17.398][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:17.400][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:17.400][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-06-10 05:31:17.400][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-06-10 05:31:17.401][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-06-10 05:31:17.403][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:17.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:17.406][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:17.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:17.409][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:17.410][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:17.412][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-06-10 05:31:17.412][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-06-10 05:31:17.414][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:17.415][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:17.417][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:17.418][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:17.421][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-06-10 05:31:17.423][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-10 05:31:17.426][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-10 05:31:17.429][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-10 05:31:17.431][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-10 05:31:17.437][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:17.438][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-06-10 05:31:17.440][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:17.443][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:17.445][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:17.447][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:17.449][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-06-10 05:31:17.451][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-06-10 05:31:17.453][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-06-10 05:31:17.453][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-06-10 05:31:17.454][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:17.456][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:17.458][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-06-10 05:31:17.460][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-06-10 05:31:17.462][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:17.464][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:17.481][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:17.482][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:17.485][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:17.487][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:17.489][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-06-10 05:31:17.491][biodb::testThat]
biodb.INFO [2025-06-10 05:31:17.493][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-06-10 05:31:17.494][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:17.496][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:17.501][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:17.504][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:17.506][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:17.508][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:17.510][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:17.512][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:17.514][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:17.515][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:17.517][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:17.521][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-06-10 05:31:17.529][biodb::testThat]
biodb.INFO [2025-06-10 05:31:17.531][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-06-10 05:31:17.532][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:17.534][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:17.537][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-06-10 05:31:17.539][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-06-10 05:31:17.541][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:17.544][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-06-10 05:31:17.548][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-06-10 05:31:17.550][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-10 05:31:17.554][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-06-10 05:31:17.556][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-06-10 05:31:17.558][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-06-10 05:31:17.559][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-06-10 05:31:17.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:17.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:17.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:17.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:17.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:17.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:17.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-10 05:31:17.580][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:17.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:17.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.585][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:17.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:17.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.593][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:17.595][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:17.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.598][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.600][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:17.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:17.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.606][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.608][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.611][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.613][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.619][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.621][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.624][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.626][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.637][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.646][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.648][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.651][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.659][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:17.669][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:17.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.672][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.674][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:17.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:17.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.681][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:17.682][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:17.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.685][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.688][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:17.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:17.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.694][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.696][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.699][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.701][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.708][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.710][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.713][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.715][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.722][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:17.724][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:17.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.727][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.729][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:17.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:17.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.737][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:17.738][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:17.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.741][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:17.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.750][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:17.752][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:17.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.755][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:17.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:17.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.764][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:17.765][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:17.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.768][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:17.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:17.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.777][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:17.779][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:17.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.782][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.783][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:17.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:17.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.790][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:17.792][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:17.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.795][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.797][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:17.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:17.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.803][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:17.805][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:17.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.808][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.810][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:17.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:17.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.816][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:17.818][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.821][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.823][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:17.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:17.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:17.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:17.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:17.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:17.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:17.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.858][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.871][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:17.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.877][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.883][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.890][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:17.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:17.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:17.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.941][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:17.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.961][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.967][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:17.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.974][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.980][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.986][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:17.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.993][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:17.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:17.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:17.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:17.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:18.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:18.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.005][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:18.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:18.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.012][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:18.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:18.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:18.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:18.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:18.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:18.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:18.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:18.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:18.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:18.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:18.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:18.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.078][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:18.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:18.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.084][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:18.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:18.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.090][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:18.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:18.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:18.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:18.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:18.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:18.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:18.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:18.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.121][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.134][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:18.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:18.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.140][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:18.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.147][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:18.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:18.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.153][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:18.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:18.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.160][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:18.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:18.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.166][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:18.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:18.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.172][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:18.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:18.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.178][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:18.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:18.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.184][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:18.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:18.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.190][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:18.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.210][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.223][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:18.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:18.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:18.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:18.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.266][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:18.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:18.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.273][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:18.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:18.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:18.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:18.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:18.331][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-06-10 05:31:18.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:18.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:18.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:18.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:18.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-10 05:31:18.362][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-06-10 05:31:18.364][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-06-10 05:31:18.366][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-06-10 05:31:18.367][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-06-10 05:31:18.369][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:18.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:18.372][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.375][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-06-10 05:31:18.390][biodb::testContext]
biodb.INFO [2025-06-10 05:31:18.391][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:18.393][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-06-10 05:31:18.395][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-10 05:31:18.397][biodb::testContext]
biodb.INFO [2025-06-10 05:31:18.403][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.0.
biodb.DEBUG[2025-06-10 05:31:18.405][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-06-10 05:31:18.410][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:18.412][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-06-10 05:31:18.414][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-06-10 05:31:18.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.418][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[2025-06-10 05:31:18.419][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-06-10 05:31:18.421][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-06-10 05:31:18.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.426][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-06-10 05:31:18.428][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-06-10 05:31:18.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.433][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-06-10 05:31:18.434][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-06-10 05:31:18.436][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-06-10 05:31:18.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.442][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-06-10 05:31:18.444][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-06-10 05:31:18.446][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-06-10 05:31:18.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.451][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-06-10 05:31:18.453][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-06-10 05:31:18.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.458][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-06-10 05:31:18.459][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-06-10 05:31:18.461][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-06-10 05:31:18.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.466][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-06-10 05:31:18.468][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-06-10 05:31:18.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.473][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-06-10 05:31:18.475][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-06-10 05:31:18.477][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-06-10 05:31:18.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.482][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-06-10 05:31:18.484][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-06-10 05:31:18.485][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-06-10 05:31:18.487][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-06-10 05:31:18.488][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-06-10 05:31:18.490][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-06-10 05:31:18.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.496][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-06-10 05:31:18.497][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-06-10 05:31:18.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.501][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[2025-06-10 05:31:18.503][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-06-10 05:31:18.505][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-06-10 05:31:18.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.510][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-06-10 05:31:18.512][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-06-10 05:31:18.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.517][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-06-10 05:31:18.519][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-06-10 05:31:18.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.525][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-06-10 05:31:18.526][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-06-10 05:31:18.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.532][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-06-10 05:31:18.534][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-06-10 05:31:18.539][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-06-10 05:31:18.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.546][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-06-10 05:31:18.548][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-06-10 05:31:18.550][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-06-10 05:31:18.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.555][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-06-10 05:31:18.566][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.568][self$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[2025-06-10 05:31:18.570][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.571][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:18.573][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.574][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.576][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.577][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.579][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-10 05:31:18.580][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:18.582][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.583][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-06-10 05:31:18.585][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:18.586][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.588][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.589][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:18.589][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-10 05:31:18.589][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-10 05:31:18.589][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-10 05:31:18.589][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-10 05:31:18.591][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:18.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.595][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:18.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.599][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.601][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.602][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:18.604][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:18.605][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.607][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.609][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-06-10 05:31:18.611][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.613][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-06-10 05:31:18.614][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.616][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:18.618][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.619][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.621][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.622][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.624][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-10 05:31:18.625][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:18.627][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.628][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-06-10 05:31:18.630][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:18.631][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.633][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.635][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:18.635][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-10 05:31:18.635][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-10 05:31:18.635][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-10 05:31:18.635][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-10 05:31:18.636][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:18.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.641][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:18.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.646][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.647][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.648][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:18.650][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:18.651][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.653][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.654][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-06-10 05:31:18.657][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.658][self$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[2025-06-10 05:31:18.660][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.661][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:18.662][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.664][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.665][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.667][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.668][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-10 05:31:18.670][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:18.671][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.673][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-06-10 05:31:18.674][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:18.676][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.677][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.679][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.680][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:18.682][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.683][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.685][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:18.686][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.688][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.689][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.691][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.692][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:18.694][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:18.695][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.697][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.699][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-06-10 05:31:18.701][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.703][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-06-10 05:31:18.705][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.706][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:18.708][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.709][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.711][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.712][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.714][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-10 05:31:18.715][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:18.717][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.719][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-06-10 05:31:18.720][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:18.722][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.723][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:18.733][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.734][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-10 05:31:18.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.738][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.739][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:18.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:18.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:18.744][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:18.745][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.747][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:18.748][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:18.750][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:18.751][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:18.754][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:18.755][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:18.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:18.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:18.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:18.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:18.866][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-06-10 05:31:18.869][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-06-10 05:31:18.871][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-06-10 05:31:18.873][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-06-10 05:31:18.875][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-10 05:31:18.877][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-10 05:31:18.879][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-06-10 05:31:18.881][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-06-10 05:31:18.890][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-06-10 05:31:18.893][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-10 05:31:18.895][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-10 05:31:18.897][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-06-10 05:31:18.899][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-06-10 05:31:18.901][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-06-10 05:31:18.903][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-06-10 05:31:18.905][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-10 05:31:18.907][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-06-10 05:31:18.909][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-06-10 05:31:18.911][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-10 05:31:18.914][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-06-10 05:31:18.916][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-06-10 05:31:18.918][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-06-10 05:31:18.921][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-06-10 05:31:18.923][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-06-10 05:31:18.925][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-06-10 05:31:18.927][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-06-10 05:31:18.928][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-06-10 05:31:18.930][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-06-10 05:31:18.932][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-06-10 05:31:18.934][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-06-10 05:31:18.937][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-06-10 05:31:18.939][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-06-10 05:31:18.941][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-06-10 05:31:18.943][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-06-10 05:31:18.945][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-06-10 05:31:18.947][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-06-10 05:31:18.949][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-06-10 05:31:18.951][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-06-10 05:31:18.953][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-06-10 05:31:18.955][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-06-10 05:31:18.957][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-06-10 05:31:18.959][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-06-10 05:31:18.961][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-06-10 05:31:18.963][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-06-10 05:31:18.965][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-06-10 05:31:18.967][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-06-10 05:31:18.969][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-06-10 05:31:18.971][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-06-10 05:31:18.973][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-06-10 05:31:18.975][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-06-10 05:31:18.977][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-06-10 05:31:18.979][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-06-10 05:31:18.981][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-06-10 05:31:18.983][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-06-10 05:31:18.985][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-06-10 05:31:18.987][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-06-10 05:31:18.989][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-06-10 05:31:18.991][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-06-10 05:31:18.993][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-06-10 05:31:18.995][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-06-10 05:31:18.997][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-06-10 05:31:18.999][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-06-10 05:31:19.001][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-06-10 05:31:19.003][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-06-10 05:31:19.005][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-06-10 05:31:19.007][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-06-10 05:31:19.009][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-10 05:31:19.011][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-10 05:31:19.013][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-06-10 05:31:19.015][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-06-10 05:31:19.017][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-06-10 05:31:19.019][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-06-10 05:31:19.021][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-06-10 05:31:19.023][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-06-10 05:31:19.025][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-06-10 05:31:19.027][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-06-10 05:31:19.029][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-06-10 05:31:19.031][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-06-10 05:31:19.033][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-06-10 05:31:19.042][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-06-10 05:31:19.045][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-06-10 05:31:19.047][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-06-10 05:31:19.050][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-06-10 05:31:19.052][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-06-10 05:31:19.054][initialize] This is biodb version 1.17.0.
biodb.DEBUG[2025-06-10 05:31:19.056][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-10 05:31:19.057][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.060][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.069][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[2025-06-10 05:31:19.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-10 05:31:19.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:19.214][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-06-10 05:31:19.216][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:19.218][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:19.220][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-06-10 05:31:19.221][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:19.223][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-10 05:31:19.224][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:19.225][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-06-10 05:31:19.227][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:19.228][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-10 05:31:19.229][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-06-10 05:31:19.231][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-10 05:31:19.232][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:19.234][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-06-10 05:31:19.235][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-06-10 05:31:19.236][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-06-10 05:31:19.238][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-06-10 05:31:19.239][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-10 05:31:19.239][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-06-10 05:31:19.239][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-06-10 05:31:19.241][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-06-10 05:31:19.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:19.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:19.245][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-10 05:31:19.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-10 05:31:19.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-10 05:31:19.249][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-10 05:31:19.250][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-06-10 05:31:19.250][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-06-10 05:31:19.252][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:19.253][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:19.254][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-06-10 05:31:19.256][self$setPropertyValue]
biodb.DEBUG[2025-06-10 05:31:19.258][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-06-10 05:31:19.260][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-10 05:31:19.262][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-10 05:31:19.264][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-10 05:31:19.266][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-10 05:31:19.271][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:19.272][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-06-10 05:31:19.274][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:19.276][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:19.277][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:19.279][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:19.281][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-06-10 05:31:19.282][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-06-10 05:31:19.284][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-06-10 05:31:19.284][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-06-10 05:31:19.285][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-10 05:31:19.286][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-10 05:31:19.288][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-06-10 05:31:19.289][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-06-10 05:31:19.290][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-06-10 05:31:19.293][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:19.294][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:19.296][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:19.298][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.5.0/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-06-10 05:31:19.300][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-10 05:31:19.301][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-06-10 05:31:19.303][biodb::testThat]
biodb.INFO [2025-06-10 05:31:19.304][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2025-06-10 05:31:19.306][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-10 05:31:19.307][biodb::testThat]
biodb.DEBUG[2025-06-10 05:31:19.310][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-06-10 05:31:19.311][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-06-10 05:31:19.313][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-06-10 05:31:19.317][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:19.319][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:19.321][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:19.323][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:19.324][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:19.326][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:19.327][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:19.329][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:19.330][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:19.332][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-06-10 05:31:19.333][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-06-10 05:31:19.344][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-06-10 05:31:19.346][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-06-10 05:31:19.348][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:19.350][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-06-10 05:31:19.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-06-10 05:31:19.355][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-10 05:31:19.357][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-06-10 05:31:19.359][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-06-10 05:31:19.361][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-06-10 05:31:19.362][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-06-10 05:31:19.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:19.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:19.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:19.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:19.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:19.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:19.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-10 05:31:19.382][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:19.383][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:19.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.386][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:19.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:19.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.394][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.395][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.398][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.400][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.405][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.407][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.410][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.412][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.417][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.419][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.421][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.423][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.433][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.441][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.442][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.445][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.452][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.454][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.456][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.458][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.464][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.466][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.468][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.470][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.476][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.477][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.480][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.482][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.488][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.489][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.492][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.501][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.507][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:19.508][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:19.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.511][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:19.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:19.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.518][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:19.520][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:19.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.522][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:19.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:19.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.530][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.531][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.534][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.541][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.543][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.546][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.553][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:19.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:19.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.558][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:19.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:19.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.565][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:19.567][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:19.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.570][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.571][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:19.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:19.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.577][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:19.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:19.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.581][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:19.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:19.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.590][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:19.591][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.594][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.596][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:19.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:19.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:19.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:19.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:19.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:19.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:19.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.626][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.632][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:19.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.638][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.650][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.674][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:19.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:19.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:19.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.725][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.732][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.739][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:19.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.746][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.752][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.758][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:19.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.765][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.771][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.777][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:19.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.783][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:19.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:19.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.790][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:19.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:19.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.796][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:19.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:19.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.802][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:19.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:19.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:19.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:19.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:19.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:19.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:19.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:19.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:19.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:19.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:19.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:19.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.839][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.871][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.876][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.882][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:19.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:19.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.906][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:19.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:19.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:19.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:19.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:19.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.924][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.931][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.937][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:19.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.942][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.948][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.954][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:19.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.960][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:19.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:19.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.965][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:19.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:19.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.971][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:19.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:19.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.977][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:19.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:19.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:19.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:19.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.000][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:20.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.046][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.052][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.063][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:20.106][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-06-10 05:31:20.108][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.114][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.121][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.128][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:20.134][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:20.135][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-06-10 05:31:20.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:20.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:20.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:20.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:20.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:20.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:20.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:20.153][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-06-10 05:31:20.155][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-06-10 05:31:20.157][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:20.160][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-06-10 05:31:20.163][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-06-10 05:31:20.165][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-10 05:31:20.167][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-06-10 05:31:20.169][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-06-10 05:31:20.170][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-06-10 05:31:20.172][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-06-10 05:31:20.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:20.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:20.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:20.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:20.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:20.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:20.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-10 05:31:20.200][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.202][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.205][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.213][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.214][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.217][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.218][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.224][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.225][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.228][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.230][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.235][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.237][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.239][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.241][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.247][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.248][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.251][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.258][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.260][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.263][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.270][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.272][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.274][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.276][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.282][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.283][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.286][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.288][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.293][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.295][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.297][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.299][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.305][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.306][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.309][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.311][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.316][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:20.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:20.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.320][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.322][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:20.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:20.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.328][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:20.329][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:20.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.332][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:20.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:20.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.339][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.343][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.362][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.364][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.372][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.376][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.377][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.383][ef$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.384][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.387][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.389][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.394][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:20.395][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:20.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.398][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:20.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:20.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.406][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:20.407][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.410][ef$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.412][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-06-10 05:31:20.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.434][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.440][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.445][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-10 05:31:20.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.451][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.457][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.462][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-06-10 05:31:20.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-10 05:31:20.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-06-10 05:31:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.515][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.521][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-06-10 05:31:20.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.526][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.532][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.537][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-06-10 05:31:20.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.543][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.548][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.554][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-06-10 05:31:20.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.560][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.566][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.572][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.577][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:20.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:20.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:20.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:20.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.589][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-10 05:31:20.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-10 05:31:20.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:20.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:20.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:20.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:20.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-10 05:31:20.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-10 05:31:20.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.629][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.634][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.640][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-10 05:31:20.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-10 05:31:20.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.687][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.693][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.698][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-06-10 05:31:20.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.704][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.709][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.715][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-06-10 05:31:20.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.721][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:20.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:20.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.726][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:20.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:20.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.732][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-10 05:31:20.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-10 05:31:20.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.738][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:20.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.760][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-06-10 05:31:20.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-10 05:31:20.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.784][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-10 05:31:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-10 05:31:20.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.795][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.800][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.812][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-06-10 05:31:20.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-10 05:31:20.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-10 05:31:20.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:20.860][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-06-10 05:31:20.862][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.867][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.873][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.879][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:20.884][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:20.885][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:20.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:20.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:20.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:20.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:20.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:20.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:20.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:20.907][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-06-10 05:31:20.909][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-06-10 05:31:20.910][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-06-10 05:31:20.912][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:20.914][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:20.916][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:20.918][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:20.920][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:20.921][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:20.923][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:20.924][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:20.925][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:20.927][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-06-10 05:31:20.928][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-06-10 05:31:20.931][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.936][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.942][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.960][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:20.966][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:20.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:20.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:20.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:20.971][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:20.973][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-06-10 05:31:20.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:20.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:20.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:20.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:20.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:20.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:20.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-10 05:31:20.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.004][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.015][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.021][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.026][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.031][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:21.037][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-06-10 05:31:21.038][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-06-10 05:31:21.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:21.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:21.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:21.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:21.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:21.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:21.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-10 05:31:21.060][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-06-10 05:31:21.061][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-06-10 05:31:21.063][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-06-10 05:31:21.065][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:21.067][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:21.069][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-06-10 05:31:21.071][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-06-10 05:31:21.073][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-06-10 05:31:21.075][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-06-10 05:31:21.077][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-06-10 05:31:21.078][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-06-10 05:31:21.080][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-06-10 05:31:21.081][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-06-10 05:31:21.083][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-06-10 05:31:21.085][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.092][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.098][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.105][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.112][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.118][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.124][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:21.129][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-06-10 05:31:21.131][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-06-10 05:31:21.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:21.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:21.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:21.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:21.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:21.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:21.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-10 05:31:21.156][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.162][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.168][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.173][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.179][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.185][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-10 05:31:21.191][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-06-10 05:31:21.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-06-10 05:31:21.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-10 05:31:21.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-10 05:31:21.197][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-06-10 05:31:21.198][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-06-10 05:31:21.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-10 05:31:21.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:21.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:21.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:21.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:21.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:21.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-06-10 05:31:21.223][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-06-10 05:31:21.225][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-06-10 05:31:21.226][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-06-10 05:31:21.228][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-06-10 05:31:21.229][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-10 05:31:21.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-10 05:31:21.231][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-10 05:31:21.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-10 05:31:21.234][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-06-10 05:31:21.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
12.720 0.459 17.847