Pierrick Roger
| Snapshot Date: 2025-08-07 13:40 -0400 (Thu, 07 Aug 2025) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: RELEASE_3_21 |
| git_last_commit: a7f0a0f |
| git_last_commit_date: 2025-04-15 12:42:50 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-08-11 11:47 -0400 (Mon, 11 Aug 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4823 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4565 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4603 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4544 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 207/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.14.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.2 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | ERROR | OK | |||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbHmdb |
| Version: 1.14.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.14.0.tar.gz |
| StartedAt: 2025-08-08 06:25:42 -0000 (Fri, 08 Aug 2025) |
| EndedAt: 2025-08-08 06:43:23 -0000 (Fri, 08 Aug 2025) |
| EllapsedTime: 1060.9 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.14.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.14.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... WARNING
Found the following significant warnings:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
See ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... INFO
installed size is 7.3Mb
sub-directories of 1Mb or more:
libs 6.7Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 WARNINGs, 2 NOTEs
See
‘/home/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘biodbHmdb’ ...
** this is package ‘biodbHmdb’ version ‘1.14.0’
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
23 | TagDetector accession_tag;
| ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
22 | bool closed;
| ^~~~~~
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
5 | EntryMaker::EntryMaker() :
| ^~~~~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c FileEntryMaker.cpp -o FileEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c TagDetector.cpp -o TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c XmlSplitter.cpp -o XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c extractXmlEntries.cpp -o extractXmlEntries.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-100-TagDetector.cpp -o test-100-TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-runner.cpp -o test-runner.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -L/home/biocbuild/R/R/lib -lR
installing to /home/biocbuild/R/R-devel_2025-02-19/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package ‘biodbHmdb’
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)
biodbHmdb.Rcheck/tests/testthat.Rout
R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-08-08 06:26:26.498][biodb::testContext]
biodb.INFO [2025-08-08 06:26:26.501][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:26:26.502][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-08-08 06:26:26.503][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:26:26.505][biodb::testContext]
biodb.INFO [2025-08-08 06:26:26.507][biodb::testThat]
biodb.INFO [2025-08-08 06:26:26.508][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2025-08-08 06:26:26.509][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:26.510][biodb::testThat]
biodb.INFO [2025-08-08 06:26:26.639][biodb::testContext]
biodb.INFO [2025-08-08 06:26:26.641][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:26:26.642][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-08 06:26:26.643][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:26:26.644][biodb::testContext]
biodb.INFO [2025-08-08 06:26:26.655][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-08 06:26:26.657][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 06:26:26.666][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:26:26.667][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 06:26:26.669][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 06:26:26.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.674][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 06:26:26.710][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 06:26:26.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.714][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[2025-08-08 06:26:26.715][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 06:26:26.716][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 06:26:26.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.721][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 06:26:26.722][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 06:26:26.724][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 06:26:26.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.728][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 06:26:26.730][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 06:26:26.731][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 06:26:26.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.736][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 06:26:26.737][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 06:26:26.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.742][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 06:26:26.744][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 06:26:26.745][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 06:26:26.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.750][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 06:26:26.751][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 06:26:26.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.756][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 06:26:26.757][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 06:26:26.758][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 06:26:26.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.763][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 06:26:26.764][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 06:26:26.766][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 06:26:26.767][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 06:26:26.768][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 06:26:26.770][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 06:26:26.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.774][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 06:26:26.776][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 06:26:26.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.780][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 06:26:26.782][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 06:26:26.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.786][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 06:26:26.788][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 06:26:26.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.793][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 06:26:26.794][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-08 06:26:26.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.799][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 06:26:26.800][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 06:26:26.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.805][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 06:26:26.806][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 06:26:26.811][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 06:26:26.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.815][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[2025-08-08 06:26:26.816][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 06:26:26.817][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 06:26:26.818][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 06:26:26.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:26.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:26.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:26.827][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 06:26:26.874][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.898][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-08 06:26:26.899][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.901][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:26:26.902][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.903][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.905][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.906][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.907][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 06:26:26.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:26:26.910][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.911][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 06:26:26.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:26:26.914][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:26.915][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.916][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:26:26.916][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 06:26:26.916][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 06:26:26.916][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 06:26:26.916][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 06:26:26.918][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:26:26.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:26.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:26.921][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:26:26.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:26.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:26.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.934][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:26.935][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:26:26.937][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:26:26.938][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.939][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:26.941][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 06:26:26.943][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.945][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 06:26:26.946][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.947][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:26:26.949][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.950][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.951][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.953][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.954][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 06:26:26.955][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:26:26.957][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.958][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 06:26:26.959][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:26:26.961][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:26.962][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.963][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:26:26.963][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 06:26:26.963][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 06:26:26.963][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 06:26:26.963][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 06:26:26.965][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:26:26.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:26.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:26.968][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:26:26.970][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:26.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:26.972][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.974][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:26.975][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:26:26.976][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:26:26.977][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.979][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:26.980][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 06:26:26.983][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.984][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-08 06:26:26.985][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.987][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:26:26.988][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:26.989][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.990][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.992][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:26:26.993][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 06:26:26.994][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:26:26.996][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:26.997][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 06:26:26.998][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:26:27.000][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.001][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.002][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:26:27.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:27.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:27.007][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:26:27.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:27.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:27.011][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:26:27.012][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.014][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:26:27.015][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:26:27.016][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:27.018][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.019][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 06:26:27.022][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.023][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 06:26:27.024][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.026][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:26:27.027][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.028][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:26:27.030][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:27.031][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:26:27.032][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 06:26:27.034][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:26:27.035][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:27.036][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 06:26:27.038][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:26:27.039][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.040][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.042][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.043][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:26:27.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:27.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:27.047][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:26:27.048][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:27.049][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:27.051][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:26:27.052][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.053][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:26:27.054][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:26:27.056][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:27.057][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.062][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:26:27.063][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.094][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[2025-08-08 06:26:27.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.165][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 06:26:27.178][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 06:26:27.180][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 06:26:27.182][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 06:26:27.184][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 06:26:27.186][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 06:26:27.188][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 06:26:27.190][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 06:26:27.191][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 06:26:27.193][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 06:26:27.195][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 06:26:27.197][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 06:26:27.199][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 06:26:27.201][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 06:26:27.203][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 06:26:27.205][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 06:26:27.206][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 06:26:27.208][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 06:26:27.210][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 06:26:27.212][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 06:26:27.214][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 06:26:27.216][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 06:26:27.218][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 06:26:27.220][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 06:26:27.222][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 06:26:27.223][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 06:26:27.225][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 06:26:27.227][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 06:26:27.229][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 06:26:27.231][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 06:26:27.233][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 06:26:27.235][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 06:26:27.237][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 06:26:27.238][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 06:26:27.240][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 06:26:27.242][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 06:26:27.244][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 06:26:27.246][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 06:26:27.248][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 06:26:27.250][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 06:26:27.252][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 06:26:27.253][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 06:26:27.255][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 06:26:27.257][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 06:26:27.259][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 06:26:27.261][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 06:26:27.263][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 06:26:27.265][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 06:26:27.267][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 06:26:27.268][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 06:26:27.270][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 06:26:27.272][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 06:26:27.274][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 06:26:27.276][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 06:26:27.278][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 06:26:27.279][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 06:26:27.282][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 06:26:27.283][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 06:26:27.285][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 06:26:27.287][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 06:26:27.289][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 06:26:27.291][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 06:26:27.293][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 06:26:27.295][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 06:26:27.297][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 06:26:27.298][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 06:26:27.300][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 06:26:27.302][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 06:26:27.304][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 06:26:27.306][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 06:26:27.308][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 06:26:27.309][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 06:26:27.311][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 06:26:27.313][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 06:26:27.315][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 06:26:27.317][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 06:26:27.319][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 06:26:27.321][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 06:26:27.322][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 06:26:27.324][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 06:26:27.326][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 06:26:27.328][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 06:26:27.330][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 06:26:27.338][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 06:26:27.340][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-08 06:26:27.344][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:26:27.345][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.348][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.501][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[2025-08-08 06:26:27.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.509][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[2025-08-08 06:26:27.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:26:27.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:26:27.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.533][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.DEBUG[2025-08-08 06:26:27.535][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-08 06:26:27.550][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:26:27.552][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:27.575][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 06:26:27.577][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.578][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:26:27.580][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:27.581][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-08 06:26:27.582][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.583][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:26:27.585][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 06:26:27.586][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:26:27.587][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.589][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-08 06:26:27.590][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-08 06:26:27.591][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-08 06:26:27.593][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 06:26:27.594][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:26:27.594][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-08 06:26:27.594][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-08 06:26:27.595][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 06:26:27.596][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:27.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:27.599][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:26:27.600][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:26:27.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:26:27.603][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:26:27.604][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 06:26:27.604][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-08 06:26:27.605][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:26:27.606][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:26:27.607][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 06:26:27.609][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:26:27.617][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-08 06:26:27.620][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 06:26:27.622][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 06:26:27.624][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 06:26:27.626][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 06:26:27.655][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:26:27.657][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-08 06:26:27.662][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:26:27.667][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:26:27.672][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:26:27.683][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:26:27.685][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-08 06:26:27.687][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-08 06:26:27.688][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 06:26:27.688][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-08 06:26:27.690][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:26:27.691][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:26:27.692][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-08 06:26:27.693][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-08 06:26:27.694][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:26:27.719][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:26:27.721][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:26:27.722][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:26:27.724][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:26:27.726][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:26:27.727][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-08 06:26:27.737][biodb::testThat]
biodb.INFO [2025-08-08 06:26:27.738][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-08-08 06:26:27.739][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:27.740][biodb::testThat]
biodb.TRACE[2025-08-08 06:26:27.746][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-08-08 06:26:27.749][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 06:26:27.753][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 06:26:27.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:26:27.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:27.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:27.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:27.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:27.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:27.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 06:26:27.790][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:27.791][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:27.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.794][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:27.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:27.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.818][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:27.820][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:27.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.822][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.860][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:27.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:27.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.865][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:27.867][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:27.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.871][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:27.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:27.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.876][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:27.878][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:27.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.882][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:27.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:27.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:27.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:27.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.892][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:27.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:27.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.910][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:27.911][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:27.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:27.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:27.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.922][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:27.923][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:27.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.925][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:27.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:27.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.933][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:27.935][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:27.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.937][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.939][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:27.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:27.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.945][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:27.947][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:27.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.952][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:27.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:27.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.957][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:27.959][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:27.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:27.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:27.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.969][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:27.971][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:27.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:27.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:27.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.981][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:27.982][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:27.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.985][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:27.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:27.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.993][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:27.994][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:27.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:27.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.005][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.006][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.009][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.017][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.018][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.021][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.028][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.030][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.032][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.034][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.040][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:28.041][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:28.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.044][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.046][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:28.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:28.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.052][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:26:28.053][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.056][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.058][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:26:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.137][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:28.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.143][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:28.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:28.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.148][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:28.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:28.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.154][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:28.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.160][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:28.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:28.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.165][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:28.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:28.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.204][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:28.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:28.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:28.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:28.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:28.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:28.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:28.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:28.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:28.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:28.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.232][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:28.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:28.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.243][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.249][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:28.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.254][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.260][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.271][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:28.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:28.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:28.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:28.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.282][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:28.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:28.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:28.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:28.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:28.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:28.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:28.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:28.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.332][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.338][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:28.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.364][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.375][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.380][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.385][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.391][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.396][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.401][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.407][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:28.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:28.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.412][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:28.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:28.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.417][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:28.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:28.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.422][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:26:28.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.443][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:26:28.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:28.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.495][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.508][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.513][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.524][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:28.561][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-08 06:26:28.564][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 06:26:28.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 06:26:28.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.569][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 06:26:28.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 06:26:28.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.574][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 06:26:28.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 06:26:28.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 06:26:28.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 06:26:28.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.615][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.659][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.670][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:28.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.700][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:28.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:28.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.731][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.736][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.742][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.747][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.749][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.752][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:28.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.785][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.787][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:28.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.807][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.812][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.818][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.823][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.824][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.828][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:28.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:28.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.880][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.886][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.891][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.896][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.898][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.902][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.942][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.943][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.945][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:28.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:28.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.963][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.968][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.973][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.979][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.980][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.984][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:28.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:28.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:28.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:28.999][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.015][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.016][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.020][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.035][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.041][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.046][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.051][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.052][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.055][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.056][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.087][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.088][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.090][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.114][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.120][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.130][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.132][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.135][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.151][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.157][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.162][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.167][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.169][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.171][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.173][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.188][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.194][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.199][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.205][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.206][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.209][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.226][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.232][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.238][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.251][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.284][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.285][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.288][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.328][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.329][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.332][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.348][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.354][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.359][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.364][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.366][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.369][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.385][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:29.386][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:29.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.395][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.397][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.406][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.407][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.410][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.417][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.418][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.421][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.427][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.429][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.431][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.438][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.439][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.448][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.450][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.452][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.459][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.460][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.469][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:29.471][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:29.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.480][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.481][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.484][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.490][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.491][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.494][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.500][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.502][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.518][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:29.519][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:29.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.530][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.539][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:29.540][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:29.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.549][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:29.551][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:29.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.553][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.559][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:29.561][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:29.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.570][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.571][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.574][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 06:26:29.584][biodb::testThat]
biodb.INFO [2025-08-08 06:26:29.585][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-08 06:26:29.587][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:29.588][biodb::testThat]
biodb.DEBUG[2025-08-08 06:26:29.608][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-08 06:26:29.617][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 06:26:29.623][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:29.625][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 06:26:29.628][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 06:26:29.629][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 06:26:29.633][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-08 06:26:29.635][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 06:26:29.670][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 06:26:29.671][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 06:26:29.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:26:29.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:26:29.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:26:29.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:26:29.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:26:29.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:26:29.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 06:26:29.691][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:29.692][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:29.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.695][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:29.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:29.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.702][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:29.703][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:29.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.713][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.716][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:29.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:29.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.721][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.723][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.727][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.733][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.734][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.739][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.755][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.757][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.766][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:29.768][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:29.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.772][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:29.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:29.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.778][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:29.779][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:29.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.781][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.783][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:29.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:29.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.789][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.790][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.794][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.800][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.801][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.805][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:29.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.811][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.812][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.815][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.816][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:29.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:29.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.821][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.823][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.825][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:29.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:29.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.832][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.834][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.836][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:29.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.843][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.845][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.847][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:29.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.854][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:29.856][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:29.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:29.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.865][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:29.866][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:29.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.869][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.871][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:29.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:29.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.876][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.877][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:29.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:29.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.887][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:26:29.888][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.893][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:26:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:29.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:29.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:29.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:29.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:29.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:29.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:29.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.921][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.926][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.932][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:26:29.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.937][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.942][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.947][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:26:29.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:26:29.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:26:29.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.985][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.990][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:29.995][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:26:29.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:29.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.001][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:30.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:30.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:30.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:30.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.012][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:30.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:26:30.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.017][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:30.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:30.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.022][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:30.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:30.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.028][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:30.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:26:30.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.033][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.038][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.043][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.049][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:30.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:30.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:30.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:30.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.059][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:26:30.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:26:30.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:30.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:30.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:30.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:30.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:26:30.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:26:30.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.102][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:30.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:30.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.108][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:30.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:30.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.121][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:30.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:26:30.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:30.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:30.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:30.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:30.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:30.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:26:30.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.164][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:30.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:30.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.169][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:30.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:30.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.175][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:30.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:26:30.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.181][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.187][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.193][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.199][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:30.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:30.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:30.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:30.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.210][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:26:30.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:26:30.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.216][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:26:30.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.239][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:26:30.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:26:30.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.277][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:30.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:30.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.283][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:30.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:30.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:30.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:30.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.295][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:30.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:26:30.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:30.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:30.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:30.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:30.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:30.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:30.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:30.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:30.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:30.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:30.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:26:30.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:26:30.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.348][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-08 06:26:30.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-08 06:26:30.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-08 06:26:30.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-08 06:26:30.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-08 06:26:30.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-08 06:26:30.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-08 06:26:30.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 06:26:30.374][biodb::testThat]
biodb.INFO [2025-08-08 06:26:30.376][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-08 06:26:30.377][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:30.378][biodb::testThat]
biodb.TRACE[2025-08-08 06:26:30.382][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.384][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.387][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.388][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-08-08 06:26:30.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.443][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-08-08 06:26:30.445][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-08 06:26:30.447][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 06:26:30.448][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 06:26:30.450][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.452][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.454][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:26:30.455][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.457][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:26:30.458][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:26:30.460][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:26:30.461][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:26:30.462][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:26:30.464][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 06:26:30.465][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 06:26:30.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.488][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:26:30.489][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 06:26:30.491][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 06:26:30.513][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.514][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.517][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.518][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-08-08 06:26:30.534][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.539][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.544][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.553][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[2025-08-08 06:26:30.633][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 06:26:30.634][private$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[2025-08-08 06:26:30.636][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-08-08 06:26:30.656][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.658][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.660][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:26:30.662][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.663][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:26:30.693][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:26:30.694][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:26:30.695][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:26:30.697][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:26:30.698][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 06:26:30.699][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 06:26:30.702][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.707][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.718][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:26:30.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:26:30.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.723][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:26:30.724][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 06:26:30.725][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 06:26:30.740][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.742][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.745][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.746][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-08-08 06:26:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.767][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.773][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.781][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-08-08 06:26:30.784][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-08-08 06:26:30.785][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-08 06:26:30.786][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-08 06:26:30.788][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.790][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.792][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:26:30.794][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.795][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:26:30.797][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:26:30.798][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:26:30.799][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:26:30.801][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:26:30.802][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 06:26:30.803][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 06:26:30.806][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.811][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.816][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.821][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:26:30.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.827][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:26:30.828][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 06:26:30.829][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-08-08 06:26:30.848][biodb::testThat]
biodb.INFO [2025-08-08 06:26:30.850][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-08-08 06:26:30.858][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:30.859][biodb::testThat]
biodb.TRACE[2025-08-08 06:26:30.874][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.904][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-08 06:26:30.906][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 06:26:30.907][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 06:26:30.909][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.911][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.913][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:26:30.915][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:26:30.916][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:26:30.918][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:26:30.919][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:26:30.921][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:26:30.922][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:26:30.923][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 06:26:30.924][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 06:26:30.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:30.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:26:30.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:26:30.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:26:30.948][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:26:30.949][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-08-08 06:26:30.968][biodb::testThat]
biodb.INFO [2025-08-08 06:26:30.969][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-08-08 06:26:30.970][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:30.972][biodb::testThat]
biodb.TRACE[2025-08-08 06:26:31.000][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:31.005][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 06:26:31.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 06:26:31.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:31.015][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 06:26:31.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 06:26:31.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:31.091][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:31.096][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 06:26:31.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:31.102][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 06:26:31.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 06:26:31.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:26:31.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 06:26:31.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 06:26:31.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:26:31.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 06:26:31.120][biodb::testThat]
biodb.INFO [2025-08-08 06:26:31.122][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-08 06:26:31.123][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:31.125][biodb::testThat]
biodb.INFO [2025-08-08 06:26:31.136][biodb::testThat]
biodb.INFO [2025-08-08 06:26:31.137][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-08 06:26:31.138][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:31.140][biodb::testThat]
biodb.INFO [2025-08-08 06:26:31.150][biodb::testThat]
biodb.INFO [2025-08-08 06:26:31.151][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-08 06:26:31.153][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:26:31.154][biodb::testThat]
biodb.DEBUG[2025-08-08 06:26:31.158][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-08-08 06:27:47.294][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-08-08 06:28:20.843][biodb::testThat]
biodb.INFO [2025-08-08 06:28:20.945][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-08 06:28:20.947][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:28:20.948][biodb::testThat]
biodb.DEBUG[2025-08-08 06:28:24.530][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-08-08 06:29:48.257][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:29:48.337][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:29:51.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:51.215][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:51.217][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:29:51.224][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:29:51.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:51.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:51.235][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:29:51.237][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:29:51.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:51.243][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 06:29:51.246][biodb::testThat]
biodb.INFO [2025-08-08 06:29:51.248][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-08-08 06:29:51.249][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:29:51.251][biodb::testThat]
biodb.DEBUG[2025-08-08 06:29:51.265][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-08 06:29:51.451][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2025-08-08 06:29:51.490][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2025-08-08 06:29:51.515][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-08-08 06:29:51.517][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-08-08 06:29:51.519][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2025-08-08 06:29:51.534][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2025-08-08 06:29:51.538][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-08-08 06:29:51.553][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-08-08 06:29:51.556][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-08-08 06:29:51.567][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2025-08-08 06:29:51.613][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker1debe499d56b8marker".
biodb.TRACE[2025-08-08 06:29:51.615][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2025-08-08 06:29:51.621][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-08-08 06:29:51.623][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-08-08 06:29:51.626][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-08-08 06:29:51.628][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2025-08-08 06:29:51.639][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-08-08 06:29:51.649][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2025-08-08 06:29:51.822][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2025-08-08 06:29:51.830][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2025-08-08 06:29:51.833][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-08-08 06:29:51.835][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2025-08-08 06:29:51.865][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2025-08-08 06:29:51.867][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-08 06:29:51.869][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-08-08 06:29:51.871][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-08-08 06:29:51.875][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker1debe426e7ac4amarker".
biodb.TRACE[2025-08-08 06:29:51.877][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2025-08-08 06:29:51.879][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-08-08 06:29:51.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-08-08 06:29:52.002][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-08 06:29:52.009][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-08 06:29:52.011][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 06:29:52.017][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:29:52.020][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 06:29:52.026][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 06:29:52.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:29:52.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:29:52.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:29:52.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:29:52.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:29:52.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:29:52.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 06:29:52.084][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:29:52.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:29:52.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:52.091][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:29:52.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:29:52.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:52.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:29:52.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:29:52.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:52.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:29:52.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:29:52.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:52.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:29:52.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:29:52.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:52.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:29:52.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:29:52.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:52.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:29:52.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:29:52.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:29:52.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:29:52.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:29:52.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:29:52.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:29:52.139][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-08 06:29:52.140][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-08 06:29:52.166][biodb::testThat]
biodb.INFO [2025-08-08 06:29:52.169][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-08 06:29:52.171][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:29:52.172][biodb::testThat]
biodb.DEBUG[2025-08-08 06:29:52.230][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-08-08 06:30:01.633][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-08-08 06:30:01.665][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 06:30:01.685][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.688][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 06:30:01.691][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-08-08 06:30:01.695][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-08 06:30:01.697][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-08 06:30:01.699][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 06:30:01.704][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.706][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 06:30:01.709][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 06:30:01.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:30:01.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:01.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:01.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:01.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:01.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:01.756][FUN] Functions in observer BiodbConfig: [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[2025-08-08 06:30:01.760][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:01.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:01.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.766][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:01.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:01.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:01.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:01.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:01.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:01.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:01.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:01.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:01.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:01.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:01.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:01.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:01.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:01.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:30:01.810][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-08 06:30:01.811][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-08 06:30:01.813][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-08-08 06:30:01.832][biodb::testThat]
biodb.INFO [2025-08-08 06:30:01.834][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-08-08 06:30:01.835][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:30:01.837][biodb::testThat]
biodb.INFO [2025-08-08 06:30:01.883][biodb::testThat]
biodb.INFO [2025-08-08 06:30:01.885][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-08-08 06:30:01.886][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:30:01.888][biodb::testThat]
biodb.DEBUG[2025-08-08 06:30:01.892][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.894][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.896][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:30:01.898][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.900][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:30:01.902][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:30:01.904][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:30:01.905][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:30:01.906][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-08-08 06:30:01.917][biodb::testThat]
biodb.INFO [2025-08-08 06:30:01.919][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-08-08 06:30:01.920][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:30:01.922][biodb::testThat]
biodb.DEBUG[2025-08-08 06:30:01.925][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.927][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.930][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:30:01.932][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:01.933][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:30:01.935][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:30:01.945][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:30:01.947][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:30:01.949][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-08-08 06:30:01.962][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:01.964][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:01.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.978][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:01.980][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:01.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:01.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:01.993][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:01.995][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:02.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:02.002][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 06:30:02.004][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-08 06:30:02.008][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-08 06:30:02.021][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-08 06:30:02.022][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 06:30:02.023][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:02.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:02.026][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:02.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:02.029][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-08 06:30:02.044][biodb::testContext]
biodb.INFO [2025-08-08 06:30:02.045][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:30:02.048][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-08-08 06:30:02.050][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:30:02.051][biodb::testContext]
biodb.INFO [2025-08-08 06:30:02.143][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-08 06:30:02.150][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 06:30:02.160][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:30:02.162][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 06:30:02.163][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 06:30:02.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.169][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 06:30:02.171][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 06:30:02.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.176][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 06:30:02.178][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 06:30:02.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.184][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 06:30:02.185][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 06:30:02.186][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 06:30:02.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.192][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 06:30:02.193][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 06:30:02.195][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 06:30:02.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.200][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 06:30:02.202][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 06:30:02.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.206][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[2025-08-08 06:30:02.207][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 06:30:02.208][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 06:30:02.210][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 06:30:02.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.215][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 06:30:02.217][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 06:30:02.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.222][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 06:30:02.223][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 06:30:02.225][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 06:30:02.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.230][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 06:30:02.232][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 06:30:02.233][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 06:30:02.235][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 06:30:02.236][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 06:30:02.238][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 06:30:02.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.252][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 06:30:02.254][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 06:30:02.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.259][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 06:30:02.260][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 06:30:02.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.266][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 06:30:02.267][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 06:30:02.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.272][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 06:30:02.274][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-08 06:30:02.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.279][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 06:30:02.281][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 06:30:02.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:02.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:02.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:02.286][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 06:30:02.287][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 06:30:07.625][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 06:30:07.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.648][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 06:30:07.650][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 06:30:07.652][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 06:30:07.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.658][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 06:30:07.662][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.663][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-08 06:30:07.665][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.666][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:07.668][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.670][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.671][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.673][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.674][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 06:30:07.676][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:07.677][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.679][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 06:30:07.681][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:07.682][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.684][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.685][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:30:07.685][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 06:30:07.685][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 06:30:07.685][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 06:30:07.685][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 06:30:07.687][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:07.689][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.690][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.691][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:07.693][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.696][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.697][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.699][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:07.700][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:07.702][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.703][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.705][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 06:30:07.708][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.710][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 06:30:07.712][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.713][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:07.715][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.716][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.718][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.719][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.721][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 06:30:07.722][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:07.724][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.725][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 06:30:07.727][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:07.728][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.730][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.732][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:30:07.732][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 06:30:07.732][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 06:30:07.732][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 06:30:07.732][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 06:30:07.733][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:07.735][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.736][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.737][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:07.739][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.740][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.742][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.743][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.745][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:07.746][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:07.748][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.749][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.751][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 06:30:07.754][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.756][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-08 06:30:07.757][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.759][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:07.760][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.762][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.779][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.781][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.782][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 06:30:07.784][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:07.786][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.787][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 06:30:07.789][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:07.790][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.792][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.793][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.795][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:07.796][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.798][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.799][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:07.801][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.803][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.805][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.806][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:07.808][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:07.809][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.811][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.813][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 06:30:07.815][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.817][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 06:30:07.818][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.820][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:07.821][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.823][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.824][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.826][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.827][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 06:30:07.829][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:07.830][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.832][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 06:30:07.833][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:07.834][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.836][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:07.837][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.839][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:07.840][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.841][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.843][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:07.844][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:07.845][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:07.847][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:07.848][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.850][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:07.851][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:07.852][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:07.854][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:07.856][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:30:07.857][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:07.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:07.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:07.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:07.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:07.980][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 06:30:07.983][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 06:30:07.985][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 06:30:07.987][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 06:30:07.989][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 06:30:07.991][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 06:30:07.994][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 06:30:07.996][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 06:30:07.998][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 06:30:08.000][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 06:30:08.002][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 06:30:08.004][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 06:30:08.006][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 06:30:08.008][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 06:30:08.010][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 06:30:08.012][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 06:30:08.014][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 06:30:08.016][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 06:30:08.018][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 06:30:08.020][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 06:30:08.022][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 06:30:08.024][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 06:30:08.027][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 06:30:08.029][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 06:30:08.031][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 06:30:08.033][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 06:30:08.035][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 06:30:08.037][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 06:30:08.039][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 06:30:08.042][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 06:30:08.044][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 06:30:08.046][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 06:30:08.048][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 06:30:08.050][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 06:30:08.052][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 06:30:08.055][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 06:30:08.057][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 06:30:08.059][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 06:30:08.061][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 06:30:08.063][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 06:30:08.065][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 06:30:08.067][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 06:30:08.070][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 06:30:08.072][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 06:30:08.074][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 06:30:08.077][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 06:30:08.079][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 06:30:08.082][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 06:30:08.084][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 06:30:08.086][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 06:30:08.089][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 06:30:08.091][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 06:30:08.094][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 06:30:08.096][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 06:30:08.107][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 06:30:08.110][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 06:30:08.112][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 06:30:08.114][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 06:30:08.117][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 06:30:08.119][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 06:30:08.121][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 06:30:08.124][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 06:30:08.126][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 06:30:08.129][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 06:30:08.131][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 06:30:08.133][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 06:30:08.136][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 06:30:08.144][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 06:30:08.147][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 06:30:08.150][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 06:30:08.153][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 06:30:08.156][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 06:30:08.158][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 06:30:08.161][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 06:30:08.164][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 06:30:08.166][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 06:30:08.169][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 06:30:08.173][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 06:30:08.176][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 06:30:08.179][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 06:30:08.182][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 06:30:08.185][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 06:30:08.188][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 06:30:08.212][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 06:30:08.224][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-08 06:30:08.226][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:30:08.228][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.231][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.291][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[2025-08-08 06:30:08.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.300][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[2025-08-08 06:30:08.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.335][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[2025-08-08 06:30:08.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:08.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:08.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:08.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:08.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:08.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:08.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:08.463][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-08 06:30:08.733][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:09.684][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:21.968][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 06:30:21.996][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:21.998][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:22.000][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:22.002][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-08 06:30:22.004][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:22.006][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:22.008][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 06:30:22.009][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:22.011][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:22.013][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-08 06:30:22.014][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-08 06:30:22.016][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-08 06:30:22.018][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:22.020][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:30:22.020][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-08 06:30:22.020][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-08 06:30:22.021][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 06:30:22.023][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:22.024][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:22.026][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:22.028][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:22.046][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:22.049][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:22.051][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 06:30:22.051][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-08 06:30:22.053][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:22.054][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:22.057][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:22.059][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:22.071][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-08 06:30:22.074][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 06:30:22.077][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 06:30:22.081][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 06:30:22.083][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 06:30:22.090][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:22.092][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-08 06:30:22.094][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:22.096][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:30:22.098][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:22.100][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:22.102][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-08 06:30:22.103][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-08 06:30:22.105][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 06:30:22.105][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-08 06:30:22.107][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:22.108][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:22.109][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-08 06:30:22.111][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-08 06:30:22.112][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:22.115][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:30:22.117][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:22.118][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:22.120][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:30:22.122][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:22.124][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-08 06:30:22.126][biodb::testThat]
biodb.INFO [2025-08-08 06:30:22.127][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-08-08 06:30:22.128][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:30:22.130][biodb::testThat]
biodb.DEBUG[2025-08-08 06:30:22.162][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:22.165][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:22.167][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:30:22.169][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:22.171][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:30:22.173][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:30:22.174][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:30:22.176][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:30:22.177][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:30:22.189][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-08-08 06:30:22.594][biodb::testThat]
biodb.INFO [2025-08-08 06:30:22.596][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-08-08 06:30:22.597][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:30:22.599][biodb::testThat]
biodb.DEBUG[2025-08-08 06:30:22.605][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-08 06:30:22.607][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 06:30:22.609][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:22.611][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 06:30:22.614][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-08 06:30:22.616][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 06:30:22.628][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-08 06:30:22.629][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 06:30:22.631][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 06:30:22.633][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 06:30:22.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:30:22.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:22.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:22.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:22.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:22.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:22.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 06:30:22.674][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:22.675][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:22.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.678][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:22.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:22.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.695][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:22.698][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:22.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.701][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.703][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:22.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:22.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.712][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:22.713][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:22.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.723][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:22.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:22.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.729][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:22.731][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:22.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.735][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:22.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:22.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.741][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:22.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:22.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.751][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:22.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:22.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.761][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:22.763][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:22.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.766][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:22.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:22.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.774][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:22.776][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:22.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.781][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:22.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:22.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.787][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:22.789][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:22.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.794][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:22.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:22.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.800][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:22.802][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:22.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.807][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:22.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:22.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.813][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:22.815][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:22.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.820][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:22.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:22.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.827][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:22.829][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:22.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.834][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:22.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:22.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:22.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:22.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:22.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:22.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.853][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:22.855][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:22.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:22.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:22.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:22.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:22.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.872][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:22.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:22.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.904][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:22.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:22.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.909][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:22.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:22.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:22.967][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:22.969][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:22.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:22.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.002][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:23.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:23.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.009][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:23.010][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:23.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.013][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.023][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:23.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:23.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.063][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:30:23.064][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.068][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.072][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:30:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.100][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:23.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:23.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:23.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:23.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:23.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:23.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.118][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:23.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:23.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.124][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:23.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:23.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.130][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:23.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:23.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:23.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:23.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:23.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:23.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:23.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:23.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:23.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:23.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:23.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:23.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.170][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:23.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:23.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:23.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.189][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:23.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:23.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:23.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:23.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.201][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:23.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:23.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.207][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:23.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:23.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.213][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.224][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:23.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.230][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:23.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:23.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.236][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:23.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:23.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.241][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:23.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:23.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.247][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:23.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.253][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:23.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:23.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.264][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:23.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:23.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:23.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:23.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.276][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:23.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:23.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:23.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:23.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:23.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:23.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.311][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:23.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:23.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:23.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:23.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:23.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:23.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:23.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:23.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.359][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:23.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:23.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.365][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:23.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:23.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.370][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:23.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:23.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.376][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:23.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:23.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.381][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:23.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:23.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.387][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:23.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:23.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.392][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:23.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:23.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.398][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:23.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:23.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:23.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:23.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.409][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:30:23.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.431][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:30:23.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:23.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:23.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:23.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.626][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:23.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:23.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.632][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:23.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:23.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.643][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:23.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:23.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:30:23.691][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-08 06:30:23.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:23.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:23.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:23.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:23.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 06:30:23.720][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-08 06:30:23.722][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-08 06:30:23.723][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-08 06:30:23.724][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 06:30:23.726][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:23.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:23.728][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:23.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:23.731][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-08 06:30:23.741][biodb::testContext]
biodb.INFO [2025-08-08 06:30:23.743][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:30:23.744][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-08-08 06:30:23.746][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 06:30:23.747][biodb::testContext]
biodb.INFO [2025-08-08 06:30:23.763][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-08 06:30:23.770][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 06:30:23.780][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:30:23.781][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 06:30:23.783][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 06:30:23.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.788][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 06:30:23.790][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 06:30:23.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.795][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 06:30:23.797][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 06:30:23.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.802][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 06:30:23.803][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 06:30:23.805][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 06:30:23.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.810][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 06:30:23.812][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 06:30:23.813][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 06:30:23.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.818][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 06:30:23.820][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 06:30:23.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.825][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 06:30:23.827][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 06:30:23.828][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 06:30:23.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.834][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 06:30:23.835][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 06:30:23.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.850][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 06:30:23.851][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 06:30:23.853][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 06:30:23.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.858][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 06:30:23.859][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 06:30:23.860][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 06:30:23.862][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 06:30:23.863][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 06:30:23.865][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 06:30:23.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.870][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 06:30:23.871][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 06:30:23.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.876][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 06:30:23.878][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 06:30:23.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.883][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 06:30:23.885][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 06:30:23.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.890][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 06:30:23.891][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-08 06:30:23.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.897][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 06:30:23.902][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 06:30:23.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:23.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:23.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:23.907][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 06:30:23.909][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 06:30:30.105][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 06:30:30.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.112][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 06:30:30.113][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 06:30:30.114][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 06:30:30.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.119][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 06:30:30.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.123][self$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[2025-08-08 06:30:30.125][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.126][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:30.127][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.129][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.130][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.131][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.132][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 06:30:30.134][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:30.135][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.136][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 06:30:30.138][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:30.139][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.140][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.142][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:30:30.142][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 06:30:30.142][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 06:30:30.142][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 06:30:30.142][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 06:30:30.143][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:30.144][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.146][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.147][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:30.148][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.149][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.151][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.152][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.153][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:30.154][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:30.156][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.157][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.159][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 06:30:30.161][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.163][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 06:30:30.164][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.165][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:30.167][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.168][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.169][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.171][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.172][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 06:30:30.173][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:30.175][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.176][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 06:30:30.177][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:30.179][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.180][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.182][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:30:30.182][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 06:30:30.182][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 06:30:30.182][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 06:30:30.182][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 06:30:30.183][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:30.192][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.193][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.195][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:30.196][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.197][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.199][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.200][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.201][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:30.202][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:30.204][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.205][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.207][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 06:30:30.209][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.210][self$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[2025-08-08 06:30:30.212][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.213][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:30.215][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.216][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.217][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.219][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.220][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 06:30:30.221][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:30.223][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.224][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 06:30:30.226][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:30.227][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.228][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.230][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.231][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:30.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.234][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.235][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:30.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.237][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.239][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.240][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.242][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:30.243][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:30.244][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.245][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.247][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 06:30:30.249][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.251][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 06:30:30.252][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.253][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:30.255][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.256][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.258][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.259][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.260][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 06:30:30.262][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:30.263][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.264][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 06:30:30.266][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:30.267][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.268][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:30.270][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.271][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 06:30:30.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.275][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:30.276][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:30.277][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:30.279][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:30.280][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.281][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:30.282][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:30.284][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:30.285][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:30.287][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:30:30.288][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.326][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[2025-08-08 06:30:30.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.384][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[2025-08-08 06:30:30.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.404][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 06:30:30.406][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 06:30:30.408][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 06:30:30.410][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 06:30:30.412][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 06:30:30.414][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 06:30:30.416][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 06:30:30.418][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 06:30:30.420][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 06:30:30.422][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 06:30:30.423][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 06:30:30.425][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 06:30:30.427][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 06:30:30.429][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 06:30:30.431][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 06:30:30.433][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 06:30:30.435][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 06:30:30.437][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 06:30:30.439][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 06:30:30.441][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 06:30:30.443][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 06:30:30.445][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 06:30:30.447][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 06:30:30.449][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 06:30:30.451][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 06:30:30.452][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 06:30:30.454][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 06:30:30.456][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 06:30:30.458][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 06:30:30.460][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 06:30:30.462][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 06:30:30.464][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 06:30:30.466][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 06:30:30.468][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 06:30:30.470][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 06:30:30.472][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 06:30:30.482][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 06:30:30.484][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 06:30:30.486][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 06:30:30.488][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 06:30:30.490][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 06:30:30.491][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 06:30:30.493][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 06:30:30.495][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 06:30:30.497][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 06:30:30.499][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 06:30:30.501][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 06:30:30.503][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 06:30:30.505][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 06:30:30.507][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 06:30:30.509][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 06:30:30.511][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 06:30:30.513][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 06:30:30.515][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 06:30:30.517][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 06:30:30.519][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 06:30:30.521][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 06:30:30.523][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 06:30:30.525][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 06:30:30.527][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 06:30:30.529][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 06:30:30.532][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 06:30:30.534][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 06:30:30.536][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 06:30:30.538][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 06:30:30.539][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 06:30:30.542][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 06:30:30.544][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 06:30:30.545][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 06:30:30.547][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 06:30:30.549][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 06:30:30.551][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 06:30:30.554][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 06:30:30.556][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 06:30:30.558][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 06:30:30.560][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 06:30:30.562][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 06:30:30.564][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 06:30:30.566][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 06:30:30.568][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 06:30:30.570][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 06:30:30.572][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 06:30:30.574][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 06:30:30.583][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 06:30:30.589][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-08 06:30:30.590][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 06:30:30.591][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.594][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.654][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[2025-08-08 06:30:30.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.662][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[2025-08-08 06:30:30.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.745][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[2025-08-08 06:30:30.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 06:30:30.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:30.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:30.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:30.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:30.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:30.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:30.820][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-08 06:30:30.836][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:30.839][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:33.601][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 06:30:33.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:33.631][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 06:30:33.634][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:33.637][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-08 06:30:33.639][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:33.641][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 06:30:33.643][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 06:30:33.644][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 06:30:33.646][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:33.648][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-08 06:30:33.650][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-08 06:30:33.651][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-08 06:30:33.653][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 06:30:33.655][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 06:30:33.655][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-08 06:30:33.655][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-08 06:30:33.657][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 06:30:33.658][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:33.660][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:33.661][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 06:30:33.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 06:30:33.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 06:30:33.667][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 06:30:33.668][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 06:30:33.668][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-08 06:30:33.670][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:33.671][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:33.673][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 06:30:33.674][self$setPropertyValue]
biodb.DEBUG[2025-08-08 06:30:33.676][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-08 06:30:33.679][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 06:30:33.682][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 06:30:33.685][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 06:30:33.687][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 06:30:33.694][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:33.696][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-08 06:30:33.698][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:33.701][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:30:33.703][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:33.705][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:33.707][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-08 06:30:33.709][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-08 06:30:33.710][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 06:30:33.710][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-08 06:30:33.712][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 06:30:33.714][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 06:30:33.715][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-08 06:30:33.717][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-08 06:30:33.719][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 06:30:33.721][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:30:33.723][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:33.725][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:33.727][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 06:30:33.729][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 06:30:33.730][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-08 06:30:33.733][biodb::testThat]
biodb.INFO [2025-08-08 06:30:33.735][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2025-08-08 06:30:33.737][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 06:30:33.739][biodb::testThat]
biodb.DEBUG[2025-08-08 06:30:33.743][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 06:30:33.745][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-08 06:30:33.746][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-08 06:30:33.770][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:33.781][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:33.784][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:30:33.786][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:33.788][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:30:33.797][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:30:33.799][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:30:33.800][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:30:33.802][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:30:33.804][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 06:30:33.805][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-08-08 06:30:33.808][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-08 06:30:33.810][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 06:30:33.812][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:33.814][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 06:30:33.832][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 06:30:33.834][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 06:30:33.842][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-08 06:30:33.844][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 06:30:33.846][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 06:30:33.848][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 06:30:33.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:30:33.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:33.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:33.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:33.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:33.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:33.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 06:30:37.636][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:37.650][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:37.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:37.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:37.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.662][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:37.663][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:37.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.666][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.668][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:37.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:37.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.674][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.676][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.679][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.687][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.689][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.691][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.694][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.700][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.704][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.713][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:37.714][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:37.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.717][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:37.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:37.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.726][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:37.727][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:37.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.732][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:37.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:37.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.739][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:37.741][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:37.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.744][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.746][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:37.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:37.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.752][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:37.754][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:37.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.757][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.759][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:37.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:37.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.765][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:37.767][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:37.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.770][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.772][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:37.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:37.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.793][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:37.795][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:37.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.800][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:37.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.806][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:37.808][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:37.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:37.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:37.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.819][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:37.821][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:37.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.826][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:37.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.833][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:37.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:37.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:37.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:37.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.846][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:37.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:37.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.851][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.853][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:37.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:37.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.859][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:37.861][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:37.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.864][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.866][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:37.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:37.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.873][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:37.874][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:37.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.877][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.879][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:37.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:37.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.885][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:30:37.887][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:37.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.890][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.892][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:30:37.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:37.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:37.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:37.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:37.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:37.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:37.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:37.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.915][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.922][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.927][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:37.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.933][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.939][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.945][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:37.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:37.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:37.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:37.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:37.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:37.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.019][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.025][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.031][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:38.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:38.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.038][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:38.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:38.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.044][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:38.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:38.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:38.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:38.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.056][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:38.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:38.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.061][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:38.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:38.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.068][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:38.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:38.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.073][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:38.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:38.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.079][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:38.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:38.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:38.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:38.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:38.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:38.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:38.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:38.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:38.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:38.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:38.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:38.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.147][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.153][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.159][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:38.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:38.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:38.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:38.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:38.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:38.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.182][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.193][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.198][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.204][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.210][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.216][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.221][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.227][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.233][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:38.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:38.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.238][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:38.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:38.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.244][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:38.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:38.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.250][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:30:38.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.272][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:30:38.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:38.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:38.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:38.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.317][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:38.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:38.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.323][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:38.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:38.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.334][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:38.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:30:38.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:30:38.373][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-08 06:30:38.375][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:38.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:38.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:38.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.386][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:38.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.392][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:38.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:38.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:30:38.397][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:30:38.398][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 06:30:38.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:30:38.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:38.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:38.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:38.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:38.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:38.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:30:38.628][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-08 06:30:38.630][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 06:30:38.636][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:30:38.646][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 06:30:38.650][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-08 06:30:38.652][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 06:30:38.655][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-08 06:30:38.657][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 06:30:38.659][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 06:30:38.661][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 06:30:38.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:30:38.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:30:38.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:30:38.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:30:38.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:30:38.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:30:38.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 06:30:38.686][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.687][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:38.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:38.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.700][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.702][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.705][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.706][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:38.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.712][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:38.714][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:38.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.718][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:38.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:38.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.724][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:38.726][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:38.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.730][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:38.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:38.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:38.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:38.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.740][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:38.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:38.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.748][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.750][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.753][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:38.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.760][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.762][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.767][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:38.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.773][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.775][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.777][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.779][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:38.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.785][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.787][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:38.791][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:38.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:38.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:39.152][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:39.217][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.577][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:42.626][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:42.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.696][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:42.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:42.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.716][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:42.718][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:42.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:42.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:42.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.729][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:42.731][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:42.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:42.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:42.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.742][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:42.744][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:42.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:42.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:42.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.755][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:42.757][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:42.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.760][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:42.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:42.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.768][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:42.769][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:42.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.774][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:42.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:42.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.780][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:42.782][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:42.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.785][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.787][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:42.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:42.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.794][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:30:42.795][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.798][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.801][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 06:30:42.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:42.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:42.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:42.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:42.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:30:42.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:30:42.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.825][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:42.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:42.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.831][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:42.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:42.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.837][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 06:30:42.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 06:30:42.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.843][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:42.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:42.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:42.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.855][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 06:30:42.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 06:30:42.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:42.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:42.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:42.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:42.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 06:30:42.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 06:30:42.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:42.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:42.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:42.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:42.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:42.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 06:30:42.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:42.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:42.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:42.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:42.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.916][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:42.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 06:30:42.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 06:30:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.974][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.980][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.988][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 06:30:42.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:42.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:42.995][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:42.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:42.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.001][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:43.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:43.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.008][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:30:43.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:30:43.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.014][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:43.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:43.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.020][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:43.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:43.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 06:30:43.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 06:30:43.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:43.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:43.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:43.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:43.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 06:30:43.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 06:30:43.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:43.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:43.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:43.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:43.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:30:43.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:43.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.148][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:43.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:43.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.180][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:43.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:43.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.191][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:43.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 06:30:43.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:43.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:43.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:43.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:43.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:43.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 06:30:43.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:43.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:43.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:43.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:43.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:30:43.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:30:43.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.279][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:43.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:43.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:43.291][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:43.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:43.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:43.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:44.024][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:48.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 06:30:48.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.549][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:48.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:48.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.558][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:48.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:48.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.564][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:48.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 06:30:48.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:48.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:48.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:48.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:48.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 06:30:48.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 06:30:48.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.594][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:30:48.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:30:48.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:30:48.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:30:48.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:31:02.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:31:02.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:02.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:02.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:31:02.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:31:02.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:02.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:02.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 06:31:02.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:31:02.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:02.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:02.453][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 06:31:02.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 06:31:02.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:02.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:03.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:31:08.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:31:08.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:31:08.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:31:08.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:31:08.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:31:08.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.788][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:31:08.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:31:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.795][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 06:31:08.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 06:31:08.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.801][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:31:08.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:31:08.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.808][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:31:08.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:31:08.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:31:08.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:31:08.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.820][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:31:08.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 06:31:08.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:31:08.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:31:08.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:31:08.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:31:08.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:31:08.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:31:08.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:31:08.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:31:08.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:31:08.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:31:08.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 06:31:08.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 06:31:08.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:31:08.864][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-08 06:31:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:31:08.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:31:08.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.872][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:31:08.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:31:08.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.878][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:31:08.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:31:08.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:31:08.884][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:31:08.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:31:08.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:31:08.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:31:08.890][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:31:08.892][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:31:08.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:31:08.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:31:08.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:31:08.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:31:08.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:31:08.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:31:08.954][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[2025-08-08 06:31:08.975][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 06:31:08.980][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-08 06:31:08.982][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-08 06:31:09.055][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:31:09.057][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:31:09.059][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:31:09.066][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:31:09.068][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:31:09.074][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:31:09.076][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:31:09.322][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:31:09.669][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:31:22.704][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 06:31:25.618][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 06:31:25.653][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:21.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:22.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:22.631][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:22.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:22.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:22.648][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:22.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:22.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:22.663][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:22.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:22.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:22.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:22.684][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:22.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:22.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:22.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:22.699][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:22.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:22.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:22.712][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:22.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:22.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:22.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:33:22.720][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:33:22.722][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 06:33:22.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:33:22.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:33:22.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:33:24.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:33:24.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:33:24.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:33:24.642][FUN] Functions in observer BiodbConfig: [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[2025-08-08 06:33:24.647][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.658][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.667][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.675][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.684][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.691][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.699][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:33:24.707][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-08 06:33:24.709][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 06:33:24.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:33:24.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:33:24.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:33:24.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:33:24.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:33:24.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:33:24.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 06:33:24.735][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 06:33:24.737][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-08 06:33:24.738][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-08 06:33:24.787][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:33:24.790][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:33:24.793][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 06:33:24.795][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 06:33:24.797][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 06:33:24.799][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 06:33:24.801][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 06:33:24.803][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 06:33:24.804][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 06:33:24.806][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 06:33:24.808][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 06:33:24.811][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.833][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.841][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.855][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.862][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.869][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:33:24.876][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-08 06:33:24.878][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-08-08 06:33:24.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:33:24.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:33:24.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:33:24.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:33:24.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:33:24.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:33:24.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 06:33:24.896][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.902][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.909][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.916][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.929][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 06:33:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 06:33:24.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 06:33:24.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 06:33:24.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 06:33:24.944][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 06:33:24.946][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 06:33:24.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 06:33:24.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:33:24.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:33:24.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:33:24.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:33:24.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:33:24.963][FUN] Functions in observer BiodbConfig: [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 [2025-08-08 06:33:24.984][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-08 06:33:24.990][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-08 06:33:24.992][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-08 06:33:24.997][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 06:33:24.999][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 06:33:25.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 06:33:25.006][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 06:33:25.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 06:33:25.013][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 06:33:25.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
12.980 99.830 421.465