Pierrick Roger
| Snapshot Date: 2025-01-20 13:00 -0500 (Mon, 20 Jan 2025) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: RELEASE_3_20 |
| git_last_commit: 0eb718c |
| git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-01-23 12:11 -0500 (Thu, 23 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4746 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4493 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4517 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4469 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4394 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 204/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.12.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbHmdb |
| Version: 1.12.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz |
| StartedAt: 2025-01-21 04:54:08 -0000 (Tue, 21 Jan 2025) |
| EndedAt: 2025-01-21 05:08:19 -0000 (Tue, 21 Jan 2025) |
| EllapsedTime: 850.7 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_1.12.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 12.3.1 (openEuler 12.3.1-36.oe2403)
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... WARNING
Found the following significant warnings:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
See ‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... NOTE
installed size is 7.3Mb
sub-directories of 1Mb or more:
libs 6.7Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 WARNINGs, 3 NOTEs
See
‘/home/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/R/R-4.4.2/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
23 | TagDetector accession_tag;
| ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
22 | bool closed;
| ^~~~~~
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
5 | EntryMaker::EntryMaker() :
| ^~~~~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c FileEntryMaker.cpp -o FileEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c TagDetector.cpp -o TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c XmlSplitter.cpp -o XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c extractXmlEntries.cpp -o extractXmlEntries.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-100-TagDetector.cpp -o test-100-TagDetector.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.2/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.2/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c test-runner.cpp -o test-runner.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -L/home/biocbuild/R/R/lib -lR
installing to /home/biocbuild/R/R-4.4.2/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package ‘biodbHmdb’
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)
biodbHmdb.Rcheck/tests/testthat.Rout
R version 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-01-21 05:07:44.522][biodb::testContext]
biodb.INFO [2025-01-21 05:07:44.525][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:07:44.526][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-21 05:07:44.527][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:07:44.529][biodb::testContext]
biodb.INFO [2025-01-21 05:07:44.531][biodb::testThat]
biodb.INFO [2025-01-21 05:07:44.532][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-21 05:07:44.533][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:44.534][biodb::testThat]
biodb.INFO [2025-01-21 05:07:44.659][biodb::testContext]
biodb.INFO [2025-01-21 05:07:44.661][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:07:44.662][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-21 05:07:44.663][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:07:44.664][biodb::testContext]
biodb.INFO [2025-01-21 05:07:44.675][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-21 05:07:44.678][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-21 05:07:44.686][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:07:44.688][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-21 05:07:44.689][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-21 05:07:44.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.694][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-21 05:07:44.729][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-21 05:07:44.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.735][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-21 05:07:44.736][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-21 05:07:44.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.741][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-21 05:07:44.742][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-21 05:07:44.743][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-21 05:07:44.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.748][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-21 05:07:44.750][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-21 05:07:44.751][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-21 05:07:44.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.756][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-21 05:07:44.757][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-21 05:07:44.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.762][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-21 05:07:44.763][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-21 05:07:44.765][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-21 05:07:44.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.770][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-21 05:07:44.771][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-21 05:07:44.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.776][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-21 05:07:44.777][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-21 05:07:44.779][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-21 05:07:44.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.783][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-21 05:07:44.785][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-21 05:07:44.786][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-21 05:07:44.788][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-21 05:07:44.789][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-21 05:07:44.790][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-21 05:07:44.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.795][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-21 05:07:44.797][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-21 05:07:44.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.802][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-21 05:07:44.803][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-21 05:07:44.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.808][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-21 05:07:44.809][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-21 05:07:44.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.814][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-21 05:07:44.816][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-21 05:07:44.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.821][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-21 05:07:44.822][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-21 05:07:44.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.827][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-21 05:07:44.828][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-21 05:07:44.833][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-21 05:07:44.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.838][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-21 05:07:44.840][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-21 05:07:44.841][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-21 05:07:44.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:44.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:44.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:44.850][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-21 05:07:44.896][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:44.919][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-21 05:07:44.921][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.922][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:07:44.924][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.925][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:07:44.926][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:44.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:07:44.929][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-21 05:07:44.931][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:07:44.932][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.933][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-21 05:07:44.935][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:07:44.936][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:44.937][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.939][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:07:44.939][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-21 05:07:44.939][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-21 05:07:44.939][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-21 05:07:44.939][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-21 05:07:44.940][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:07:44.941][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:44.943][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:44.944][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:07:44.945][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:44.947][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:44.948][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:07:44.950][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:44.951][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:07:44.952][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:07:44.954][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:44.955][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:44.957][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-21 05:07:44.960][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:44.961][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-21 05:07:44.970][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.972][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:07:44.973][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.974][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:07:44.976][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:44.978][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:07:44.979][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-21 05:07:44.981][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:07:44.982][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.984][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-21 05:07:44.985][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:07:44.987][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:44.988][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:44.990][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:07:44.990][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-21 05:07:44.990][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-21 05:07:44.990][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-21 05:07:44.990][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-21 05:07:44.991][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:07:44.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:44.994][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:44.996][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:07:44.997][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:44.999][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:45.000][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.001][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.003][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:07:45.004][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:07:45.005][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.007][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.008][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-21 05:07:45.011][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.012][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-21 05:07:45.013][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.015][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:07:45.016][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.017][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.019][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.020][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.022][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-21 05:07:45.023][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:07:45.025][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.026][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-21 05:07:45.028][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:07:45.029][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.030][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.032][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.033][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:07:45.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:45.036][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:45.037][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:07:45.038][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:45.039][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:45.041][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.042][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.043][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:07:45.045][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:07:45.046][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.047][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.049][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-21 05:07:45.051][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.053][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-21 05:07:45.054][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.055][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:07:45.057][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.058][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.059][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.061][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.062][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-21 05:07:45.064][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:07:45.065][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.066][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-21 05:07:45.068][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:07:45.069][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.070][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.072][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.073][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:07:45.074][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:45.076][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:45.077][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:07:45.078][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:45.079][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:45.081][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.082][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.083][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:07:45.085][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:07:45.086][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.087][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.092][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:07:45.093][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.106][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[2025-01-21 05:07:45.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.112][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[2025-01-21 05:07:45.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.118][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[2025-01-21 05:07:45.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.167][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[2025-01-21 05:07:45.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.198][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-21 05:07:45.204][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-21 05:07:45.206][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-21 05:07:45.208][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-21 05:07:45.210][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-21 05:07:45.219][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-21 05:07:45.221][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-21 05:07:45.223][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-21 05:07:45.225][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-21 05:07:45.226][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-21 05:07:45.228][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-21 05:07:45.230][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-21 05:07:45.232][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-21 05:07:45.234][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-21 05:07:45.235][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-21 05:07:45.237][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-21 05:07:45.239][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-21 05:07:45.241][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-21 05:07:45.243][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-21 05:07:45.245][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-21 05:07:45.247][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-21 05:07:45.249][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-21 05:07:45.251][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-21 05:07:45.253][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-21 05:07:45.254][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-21 05:07:45.256][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-21 05:07:45.258][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-21 05:07:45.260][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-21 05:07:45.262][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-21 05:07:45.264][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-21 05:07:45.266][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-21 05:07:45.268][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-21 05:07:45.270][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-21 05:07:45.272][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-21 05:07:45.273][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-21 05:07:45.275][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-21 05:07:45.277][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-21 05:07:45.279][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-21 05:07:45.281][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-21 05:07:45.283][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-21 05:07:45.285][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-21 05:07:45.287][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-21 05:07:45.289][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-21 05:07:45.291][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-21 05:07:45.293][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-21 05:07:45.294][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-21 05:07:45.296][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-21 05:07:45.298][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-21 05:07:45.301][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-21 05:07:45.303][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-21 05:07:45.305][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-21 05:07:45.307][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-21 05:07:45.309][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-21 05:07:45.310][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-21 05:07:45.312][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-21 05:07:45.314][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-21 05:07:45.316][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-21 05:07:45.318][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-21 05:07:45.320][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-21 05:07:45.322][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-21 05:07:45.324][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-21 05:07:45.326][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-21 05:07:45.328][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-21 05:07:45.330][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-21 05:07:45.332][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-21 05:07:45.334][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-21 05:07:45.336][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-21 05:07:45.338][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-21 05:07:45.339][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-21 05:07:45.341][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-21 05:07:45.343][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-21 05:07:45.345][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-21 05:07:45.347][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-21 05:07:45.349][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-21 05:07:45.351][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-21 05:07:45.353][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-21 05:07:45.355][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-21 05:07:45.357][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-21 05:07:45.359][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-21 05:07:45.360][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-21 05:07:45.362][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-21 05:07:45.364][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-21 05:07:45.366][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-21 05:07:45.374][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-21 05:07:45.376][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-21 05:07:45.380][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:07:45.382][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.384][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.525][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[2025-01-21 05:07:45.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.533][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[2025-01-21 05:07:45.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:07:45.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:07:45.569][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-21 05:07:45.584][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:07:45.586][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.588][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.589][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.590][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:07:45.592][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.593][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-21 05:07:45.594][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.596][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.597][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-21 05:07:45.599][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:07:45.600][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.602][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-21 05:07:45.603][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-21 05:07:45.605][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-21 05:07:45.606][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-21 05:07:45.608][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:07:45.608][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-21 05:07:45.608][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-21 05:07:45.609][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-21 05:07:45.610][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:45.611][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:45.613][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:07:45.614][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:07:45.615][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:07:45.617][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:07:45.618][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-21 05:07:45.618][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-21 05:07:45.619][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:07:45.621][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:07:45.622][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-21 05:07:45.623][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:07:45.631][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-21 05:07:45.634][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-21 05:07:45.636][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-21 05:07:45.638][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-21 05:07:45.640][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-21 05:07:45.669][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:07:45.671][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-21 05:07:45.675][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:07:45.681][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:07:45.686][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:07:45.687][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:07:45.689][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-21 05:07:45.690][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-21 05:07:45.691][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-21 05:07:45.691][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-21 05:07:45.693][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:07:45.694][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:07:45.695][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-21 05:07:45.696][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-21 05:07:45.698][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:07:45.734][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:07:45.736][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:07:45.738][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:07:45.740][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:07:45.742][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:07:45.743][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-21 05:07:45.754][biodb::testThat]
biodb.INFO [2025-01-21 05:07:45.755][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-01-21 05:07:45.757][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:45.758][biodb::testThat]
biodb.TRACE[2025-01-21 05:07:45.764][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-01-21 05:07:45.767][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-21 05:07:45.771][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-21 05:07:45.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:07:45.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:45.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:45.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:45.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:45.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:45.794][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.TRACE[2025-01-21 05:07:45.808][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:45.810][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:45.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.813][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:45.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:45.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.839][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:45.840][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:45.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.843][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.882][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:45.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:45.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.888][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:45.889][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:45.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.892][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.893][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:45.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:45.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.899][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:45.900][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:45.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.903][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.905][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:45.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.910][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:45.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:45.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.914][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:45.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:45.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.922][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:45.923][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:45.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.926][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:45.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:45.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.933][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:45.934][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:45.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.937][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.939][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:45.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:45.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.945][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:45.946][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:45.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.948][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.950][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:45.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:45.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.966][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:45.968][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:45.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.970][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.972][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:45.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:45.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.977][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:45.979][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:45.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.981][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:45.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:45.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.989][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:45.990][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:45.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.993][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:45.994][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:45.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:45.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:45.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.000][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:46.001][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:46.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.004][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:46.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:46.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.011][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.013][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.015][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.022][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.026][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.034][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.035][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.038][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.045][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:46.046][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:46.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.049][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.050][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:46.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:46.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.056][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:46.057][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:46.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.060][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.062][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:46.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:46.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.067][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:07:46.069][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.071][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.073][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:07:46.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.142][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:46.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:46.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.156][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:46.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:46.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.161][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:46.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:46.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.167][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:46.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.172][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:46.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:46.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.177][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:46.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:46.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:46.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:46.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:46.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:46.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:46.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:46.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.232][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:46.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:46.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:46.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:46.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.243][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:46.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.249][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.254][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.260][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:46.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:46.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.271][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:46.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:46.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.276][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:46.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:46.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:46.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:46.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:46.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:46.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:46.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:46.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:46.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:46.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:46.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:46.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:46.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.341][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:46.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.372][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.377][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.388][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.394][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.399][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.405][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.410][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.416][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:46.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:46.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.428][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:46.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.434][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:46.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:46.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.440][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:07:46.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.452][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.465][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:07:46.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:46.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.503][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.519][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.525][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.530][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:46.585][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-21 05:07:46.588][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-21 05:07:46.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-21 05:07:46.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.593][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-21 05:07:46.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-21 05:07:46.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.599][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-21 05:07:46.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-21 05:07:46.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-21 05:07:46.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-21 05:07:46.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.642][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.688][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.693][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.698][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:46.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.730][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.731][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.734][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:46.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:46.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.751][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.761][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.775][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.776][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.779][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.780][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:46.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.812][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.813][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.816][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:46.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.833][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.839][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.845][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.850][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.852][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.855][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.856][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:46.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.892][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.908][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.913][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.919][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.924][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.926][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.928][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.929][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:46.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.961][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.972][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:46.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:46.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.989][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:46.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:46.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:46.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:46.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:46.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.005][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:47.006][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:47.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.009][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.010][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:47.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:47.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.038][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.043][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.044][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.047][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.048][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.064][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.069][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.074][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.079][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.081][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.083][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.085][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.115][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.117][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.119][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.135][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.141][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.146][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.151][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.152][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.154][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.178][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.184][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.189][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.195][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.196][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.199][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.200][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.222][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.233][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.234][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.236][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.238][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.253][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.259][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.265][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.270][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.272][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.274][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.276][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.308][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.309][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.312][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.344][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.347][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.372][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.378][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.383][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.388][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.390][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.392][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.393][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.409][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:47.410][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:47.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.413][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.419][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.420][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.423][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.429][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.430][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.433][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.440][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.443][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.449][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.450][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.453][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.458][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.460][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.462][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.468][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.470][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.473][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.479][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.480][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.483][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.489][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:47.490][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:47.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.493][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.499][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.500][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.503][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.509][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.510][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.513][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.523][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.529][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:47.531][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:47.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.533][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.540][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.541][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.543][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.549][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:47.551][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:47.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.553][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.566][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:47.568][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:47.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.571][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.577][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:47.578][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:47.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.581][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.587][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.591][ef$get] fields variable is a list.
biodb.INFO [2025-01-21 05:07:47.602][biodb::testThat]
biodb.INFO [2025-01-21 05:07:47.603][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-21 05:07:47.604][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:47.606][biodb::testThat]
biodb.DEBUG[2025-01-21 05:07:47.626][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-21 05:07:47.634][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-21 05:07:47.642][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:47.644][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-21 05:07:47.647][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-21 05:07:47.649][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-21 05:07:47.653][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-21 05:07:47.654][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-21 05:07:47.688][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-21 05:07:47.690][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-21 05:07:47.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:07:47.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:07:47.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:07:47.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:07:47.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:07:47.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:07:47.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-21 05:07:47.709][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:47.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:47.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.713][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:47.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:47.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.720][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:47.722][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:47.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.724][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.726][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:47.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.732][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.733][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.736][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.738][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.743][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.745][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.747][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.749][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.768][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.775][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.777][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.779][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.786][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:47.788][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:47.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.790][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.792][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:47.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:47.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.798][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:47.799][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:47.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.802][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.804][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:47.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:47.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.809][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.811][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.813][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.815][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.821][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.823][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.825][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.827][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:47.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.833][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.837][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:47.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.845][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.846][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.849][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:47.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:47.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.857][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.861][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:47.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.868][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.872][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:47.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.880][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:47.881][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:47.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.884][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.886][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:47.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.891][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:47.892][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:47.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.895][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.897][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:47.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.902][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.906][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.908][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:47.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:47.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.914][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:07:47.915][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.918][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.920][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:07:47.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:47.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:47.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:47.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:47.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:47.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:47.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:47.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.941][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.947][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.952][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:07:47.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.965][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.970][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:07:47.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:07:47.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:47.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:47.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:47.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:48.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:48.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:48.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:07:48.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.011][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:48.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:48.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.016][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:48.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:48.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.030][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:48.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:07:48.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.037][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:48.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:48.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.043][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:48.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:48.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:48.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:07:48.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.056][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:48.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:48.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.063][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:48.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:48.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.069][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:48.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:07:48.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.076][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.082][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.089][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:48.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:48.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:48.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:48.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.109][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:07:48.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:07:48.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:48.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:48.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:48.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:48.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:07:48.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:07:48.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.152][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:48.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:48.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.158][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:48.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:48.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.164][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:48.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:07:48.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:48.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:48.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:48.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:48.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:48.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:07:48.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.219][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:48.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:48.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.225][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:48.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:48.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.231][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:48.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:07:48.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.237][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.243][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.249][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:48.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:48.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:48.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:48.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:07:48.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:07:48.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.272][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:07:48.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.296][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:07:48.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:07:48.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.303][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.320][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.332][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:48.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:48.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.338][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:48.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:48.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:48.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.349][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:48.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:07:48.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:48.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:48.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:48.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:48.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:48.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:48.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:48.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:48.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:48.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:48.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:07:48.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:07:48.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.396][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-21 05:07:48.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-21 05:07:48.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-21 05:07:48.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-21 05:07:48.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-21 05:07:48.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-21 05:07:48.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-21 05:07:48.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-21 05:07:48.424][biodb::testThat]
biodb.INFO [2025-01-21 05:07:48.425][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-21 05:07:48.427][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:48.428][biodb::testThat]
biodb.TRACE[2025-01-21 05:07:48.432][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.434][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.436][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.438][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-21 05:07:48.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.500][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-21 05:07:48.502][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-21 05:07:48.503][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-21 05:07:48.505][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-21 05:07:48.507][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.509][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.511][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:07:48.513][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.514][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:07:48.516][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:07:48.518][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:07:48.520][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:07:48.521][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:07:48.523][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-21 05:07:48.524][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-21 05:07:48.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.550][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:07:48.551][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-21 05:07:48.553][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-21 05:07:48.568][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.570][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.572][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.574][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-21 05:07:48.598][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.603][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.609][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.618][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2025-01-21 05:07:48.697][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-21 05:07:48.699][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-21 05:07:48.700][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-21 05:07:48.722][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.724][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.727][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:07:48.729][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.731][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:07:48.755][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:07:48.757][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:07:48.758][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:07:48.760][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:07:48.770][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-21 05:07:48.772][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-21 05:07:48.775][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.781][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.788][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.795][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:07:48.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:07:48.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.801][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:07:48.803][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-21 05:07:48.804][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-21 05:07:48.821][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.822][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.825][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.827][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-21 05:07:48.844][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.850][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.856][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.866][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-21 05:07:48.868][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-21 05:07:48.870][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-21 05:07:48.871][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-21 05:07:48.874][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.876][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.878][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:07:48.881][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:48.882][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:07:48.884][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:07:48.886][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:07:48.887][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:07:48.889][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:07:48.890][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-21 05:07:48.891][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-21 05:07:48.894][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.900][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.906][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.912][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:07:48.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:48.918][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:07:48.919][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-21 05:07:48.921][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-21 05:07:48.942][biodb::testThat]
biodb.INFO [2025-01-21 05:07:48.943][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-01-21 05:07:48.945][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:48.946][biodb::testThat]
biodb.TRACE[2025-01-21 05:07:48.962][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.968][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:48.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:48.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:48.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:48.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:49.000][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-21 05:07:49.002][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-21 05:07:49.003][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-21 05:07:49.006][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:49.008][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:49.010][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:07:49.012][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:07:49.013][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:07:49.015][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:07:49.016][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:07:49.018][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:07:49.019][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:07:49.020][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-21 05:07:49.022][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-21 05:07:49.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:49.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:49.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:49.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:49.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:49.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:49.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:07:49.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:07:49.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:07:49.049][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:07:49.050][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-21 05:07:49.071][biodb::testThat]
biodb.INFO [2025-01-21 05:07:49.072][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-01-21 05:07:49.074][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:49.075][biodb::testThat]
biodb.TRACE[2025-01-21 05:07:49.104][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.111][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.117][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-21 05:07:49.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-21 05:07:49.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.122][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-21 05:07:49.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-21 05:07:49.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.196][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.202][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-21 05:07:49.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.207][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-21 05:07:49.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-21 05:07:49.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:07:49.213][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-21 05:07:49.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-21 05:07:49.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:07:49.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-21 05:07:49.226][biodb::testThat]
biodb.INFO [2025-01-21 05:07:49.228][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-21 05:07:49.229][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:49.231][biodb::testThat]
biodb.INFO [2025-01-21 05:07:49.241][biodb::testThat]
biodb.INFO [2025-01-21 05:07:49.243][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-21 05:07:49.244][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:49.246][biodb::testThat]
biodb.INFO [2025-01-21 05:07:49.256][biodb::testThat]
biodb.INFO [2025-01-21 05:07:49.257][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-21 05:07:49.259][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:07:49.260][biodb::testThat]
biodb.DEBUG[2025-01-21 05:07:49.265][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-21 05:08:03.433][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-21 05:08:03.953][biodb::testThat]
biodb.INFO [2025-01-21 05:08:03.955][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-21 05:08:03.956][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:03.957][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:10.998][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-21 05:08:11.502][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:11.504][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:11.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.506][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.508][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:11.509][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:11.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.512][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.513][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:11.515][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:11.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.517][ef$get] fields variable is a list.
biodb.INFO [2025-01-21 05:08:11.520][biodb::testThat]
biodb.INFO [2025-01-21 05:08:11.521][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-01-21 05:08:11.522][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:11.524][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:11.526][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-21 05:08:11.606][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2025-01-21 05:08:11.608][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2025-01-21 05:08:11.610][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-01-21 05:08:11.612][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-01-21 05:08:11.613][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2025-01-21 05:08:11.615][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2025-01-21 05:08:11.617][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-01-21 05:08:11.620][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-21 05:08:11.627][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-01-21 05:08:11.629][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2025-01-21 05:08:11.632][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker17e8183dfd6f77marker".
biodb.TRACE[2025-01-21 05:08:11.634][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2025-01-21 05:08:11.636][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-21 05:08:11.638][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-21 05:08:11.640][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-01-21 05:08:11.641][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2025-01-21 05:08:11.644][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-01-21 05:08:11.645][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2025-01-21 05:08:11.662][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2025-01-21 05:08:11.664][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2025-01-21 05:08:11.665][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-01-21 05:08:11.668][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2025-01-21 05:08:11.678][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2025-01-21 05:08:11.680][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-21 05:08:11.681][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-21 05:08:11.683][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-01-21 05:08:11.685][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker17e81850db0612marker".
biodb.TRACE[2025-01-21 05:08:11.687][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2025-01-21 05:08:11.689][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-01-21 05:08:11.716][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-21 05:08:11.718][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-21 05:08:11.719][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-21 05:08:11.721][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-21 05:08:11.723][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:11.725][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-21 05:08:11.727][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-21 05:08:11.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:11.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:11.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:11.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:11.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:11.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:11.785][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.TRACE[2025-01-21 05:08:11.789][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:11.836][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-21 05:08:11.838][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-21 05:08:11.861][biodb::testThat]
biodb.INFO [2025-01-21 05:08:11.862][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-21 05:08:11.863][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:11.865][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:11.875][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-21 05:08:11.877][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-21 05:08:11.878][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-21 05:08:11.880][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:11.882][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-21 05:08:11.885][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-21 05:08:11.887][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-21 05:08:11.888][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-21 05:08:11.890][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-21 05:08:11.892][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:11.893][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-21 05:08:11.895][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-21 05:08:11.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:11.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:11.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:11.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:11.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:11.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:11.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-21 05:08:11.912][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.918][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:11.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:11.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:11.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:11.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:11.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:11.965][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-21 05:08:11.966][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-21 05:08:11.968][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-21 05:08:11.985][biodb::testThat]
biodb.INFO [2025-01-21 05:08:11.986][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-01-21 05:08:11.988][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:11.989][biodb::testThat]
biodb.INFO [2025-01-21 05:08:12.020][biodb::testThat]
biodb.INFO [2025-01-21 05:08:12.021][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-01-21 05:08:12.022][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:12.024][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:12.027][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:12.029][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:12.031][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:08:12.033][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:12.034][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:08:12.036][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:08:12.038][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:08:12.039][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:08:12.040][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-21 05:08:12.052][biodb::testThat]
biodb.INFO [2025-01-21 05:08:12.053][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-01-21 05:08:12.054][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:12.056][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:12.059][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:12.061][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:12.063][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:08:12.065][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:12.066][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:08:12.068][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:08:12.070][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:08:12.071][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:08:12.072][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-21 05:08:12.084][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:12.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:12.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:12.088][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:12.090][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:12.091][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:12.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:12.094][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:12.095][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:12.097][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:12.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:12.099][ef$get] fields variable is a list.
biodb.INFO [2025-01-21 05:08:12.108][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-21 05:08:12.110][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-21 05:08:12.122][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-21 05:08:12.123][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-21 05:08:12.125][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.127][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.130][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-21 05:08:12.136][biodb::testContext]
biodb.INFO [2025-01-21 05:08:12.137][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:08:12.138][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-21 05:08:12.140][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:08:12.141][biodb::testContext]
biodb.INFO [2025-01-21 05:08:12.146][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-21 05:08:12.148][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-21 05:08:12.153][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:08:12.155][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-21 05:08:12.156][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-21 05:08:12.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.161][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-21 05:08:12.163][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-21 05:08:12.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.168][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-21 05:08:12.169][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-21 05:08:12.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.174][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-21 05:08:12.176][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-21 05:08:12.177][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-21 05:08:12.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.182][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-21 05:08:12.184][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-21 05:08:12.185][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-21 05:08:12.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.190][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-21 05:08:12.192][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-21 05:08:12.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.197][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-21 05:08:12.199][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-21 05:08:12.200][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-21 05:08:12.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.205][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-21 05:08:12.207][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-21 05:08:12.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.212][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-21 05:08:12.214][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-21 05:08:12.215][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-21 05:08:12.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.220][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-21 05:08:12.222][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-21 05:08:12.223][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-21 05:08:12.224][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-21 05:08:12.226][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-21 05:08:12.227][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-21 05:08:12.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.233][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-21 05:08:12.234][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-21 05:08:12.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.239][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-21 05:08:12.241][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-21 05:08:12.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.246][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-21 05:08:12.247][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-21 05:08:12.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.252][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-21 05:08:12.254][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-21 05:08:12.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.266][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-21 05:08:12.269][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-21 05:08:12.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.274][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-21 05:08:12.276][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-21 05:08:12.281][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-21 05:08:12.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.284][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[2025-01-21 05:08:12.285][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-21 05:08:12.287][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-21 05:08:12.288][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-21 05:08:12.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.293][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-21 05:08:12.296][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.297][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-21 05:08:12.299][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.300][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:12.301][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.303][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.304][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.306][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.307][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-21 05:08:12.309][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:12.310][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.311][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-21 05:08:12.313][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:12.314][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.316][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.317][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:08:12.317][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-21 05:08:12.317][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-21 05:08:12.317][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-21 05:08:12.317][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-21 05:08:12.318][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:12.320][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.321][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.322][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:12.324][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.325][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.326][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.328][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.329][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:12.330][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:12.332][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.333][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.335][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-21 05:08:12.337][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.339][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-21 05:08:12.340][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.341][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:12.343][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.344][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.346][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.347][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.349][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-21 05:08:12.350][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:12.351][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.353][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-21 05:08:12.354][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:12.356][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.357][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.358][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:08:12.358][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-21 05:08:12.358][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-21 05:08:12.358][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-21 05:08:12.358][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-21 05:08:12.360][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:12.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:12.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.367][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.368][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.369][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.371][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:12.372][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:12.373][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.375][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.376][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-21 05:08:12.379][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.380][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-21 05:08:12.382][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.383][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:12.384][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.386][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.387][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.389][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.390][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-21 05:08:12.392][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:12.393][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.394][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-21 05:08:12.396][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:12.397][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.399][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.400][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.401][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:12.403][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.405][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:12.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.408][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.409][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.411][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.412][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:12.414][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:12.415][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.416][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.425][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-21 05:08:12.428][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.430][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-21 05:08:12.431][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.433][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:12.434][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.435][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.437][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.438][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.439][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-21 05:08:12.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:12.442][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.444][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-21 05:08:12.445][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:12.446][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.448][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.449][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.450][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:12.452][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.453][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.454][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:12.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.457][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.458][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.460][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.461][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:12.462][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:12.464][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.465][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.467][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:08:12.469][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.477][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[2025-01-21 05:08:12.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.533][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[2025-01-21 05:08:12.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.595][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[2025-01-21 05:08:12.596][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-21 05:08:12.598][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-21 05:08:12.600][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-21 05:08:12.602][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-21 05:08:12.604][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-21 05:08:12.606][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-21 05:08:12.608][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-21 05:08:12.610][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-21 05:08:12.612][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-21 05:08:12.614][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-21 05:08:12.616][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-21 05:08:12.618][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-21 05:08:12.620][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-21 05:08:12.622][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-21 05:08:12.624][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-21 05:08:12.626][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-21 05:08:12.628][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-21 05:08:12.630][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-21 05:08:12.632][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-21 05:08:12.634][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-21 05:08:12.636][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-21 05:08:12.638][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-21 05:08:12.640][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-21 05:08:12.642][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-21 05:08:12.644][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-21 05:08:12.646][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-21 05:08:12.648][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-21 05:08:12.650][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-21 05:08:12.653][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-21 05:08:12.655][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-21 05:08:12.657][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-21 05:08:12.659][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-21 05:08:12.661][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-21 05:08:12.663][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-21 05:08:12.665][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-21 05:08:12.667][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-21 05:08:12.669][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-21 05:08:12.671][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-21 05:08:12.673][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-21 05:08:12.675][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-21 05:08:12.677][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-21 05:08:12.679][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-21 05:08:12.681][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-21 05:08:12.683][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-21 05:08:12.685][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-21 05:08:12.687][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-21 05:08:12.689][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-21 05:08:12.691][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-21 05:08:12.693][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-21 05:08:12.695][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-21 05:08:12.697][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-21 05:08:12.699][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-21 05:08:12.701][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-21 05:08:12.703][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-21 05:08:12.705][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-21 05:08:12.707][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-21 05:08:12.709][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-21 05:08:12.711][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-21 05:08:12.713][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-21 05:08:12.715][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-21 05:08:12.717][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-21 05:08:12.718][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-21 05:08:12.720][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-21 05:08:12.722][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-21 05:08:12.724][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-21 05:08:12.726][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-21 05:08:12.728][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-21 05:08:12.730][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-21 05:08:12.732][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-21 05:08:12.742][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-21 05:08:12.744][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-21 05:08:12.746][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-21 05:08:12.748][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-21 05:08:12.750][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-21 05:08:12.752][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-21 05:08:12.754][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-21 05:08:12.756][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-21 05:08:12.758][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-21 05:08:12.760][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-21 05:08:12.762][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-21 05:08:12.764][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-21 05:08:12.766][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-21 05:08:12.768][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-21 05:08:12.770][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-21 05:08:12.772][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-21 05:08:12.774][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:08:12.775][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.777][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.787][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[2025-01-21 05:08:12.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.858][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[2025-01-21 05:08:12.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.909][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[2025-01-21 05:08:12.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:12.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:12.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:12.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:12.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:12.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:12.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:12.937][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-21 05:08:12.939][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:12.942][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.943][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.945][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.946][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:12.947][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.949][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-21 05:08:12.950][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.952][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.953][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-21 05:08:12.954][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:12.956][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.957][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-21 05:08:12.958][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-21 05:08:12.960][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-21 05:08:12.961][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:12.963][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:08:12.963][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-21 05:08:12.963][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-21 05:08:12.964][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-21 05:08:12.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.968][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:12.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:12.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:12.972][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:12.973][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-21 05:08:12.973][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-21 05:08:12.975][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:12.976][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:12.977][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:12.979][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:12.981][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-21 05:08:12.983][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-21 05:08:12.985][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-21 05:08:12.987][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-21 05:08:12.989][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-21 05:08:12.993][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:12.995][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-21 05:08:12.996][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:12.998][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:08:13.000][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:13.001][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:13.003][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-21 05:08:13.005][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-21 05:08:13.006][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-21 05:08:13.006][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-21 05:08:13.007][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:13.009][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:13.010][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-21 05:08:13.011][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-21 05:08:13.013][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:13.015][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:08:13.016][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:13.018][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:13.019][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:08:13.021][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:13.022][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-21 05:08:13.024][biodb::testThat]
biodb.INFO [2025-01-21 05:08:13.026][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-21 05:08:13.027][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:13.028][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:13.033][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:13.042][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:13.044][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:08:13.046][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:13.048][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:08:13.050][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:08:13.051][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:08:13.052][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:08:13.054][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:08:13.058][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-21 05:08:13.065][biodb::testThat]
biodb.INFO [2025-01-21 05:08:13.066][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-21 05:08:13.067][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:13.069][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:13.071][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-21 05:08:13.073][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-21 05:08:13.075][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:13.077][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-21 05:08:13.080][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-21 05:08:13.082][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-21 05:08:13.084][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-21 05:08:13.085][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-21 05:08:13.087][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-21 05:08:13.088][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-21 05:08:13.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:13.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:13.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:13.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:13.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:13.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-21 05:08:13.108][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.109][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.112][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.120][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.121][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.125][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.131][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.132][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.135][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.136][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.142][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.143][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.146][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.148][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.153][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.155][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.165][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.167][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.169][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.177][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.178][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.181][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.182][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.188][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.190][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.199][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.201][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.207][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.209][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.213][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.219][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.220][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.222][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.224][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.230][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:13.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:13.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.234][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:13.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:13.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.241][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:13.242][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:13.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.245][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:13.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:13.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.253][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.254][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.257][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.264][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.266][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.268][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.276][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.277][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.280][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.288][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:13.289][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:13.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.292][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:13.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:13.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.299][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:13.301][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:13.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.303][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:13.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:13.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.311][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:08:13.313][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.316][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.318][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:08:13.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.341][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.347][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.361][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:13.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.367][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.373][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.378][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:13.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:13.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:13.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.418][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.429][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:13.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.447][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:13.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.453][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.459][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.464][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:13.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:13.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:13.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.475][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:13.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:13.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.481][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:13.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:13.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:13.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:13.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:13.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:13.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:13.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:13.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:13.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:13.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:13.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:13.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:13.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:13.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.549][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.555][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:13.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:13.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.583][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.594][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.600][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.606][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:13.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.612][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.618][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.623][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:13.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:13.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:13.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.635][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:13.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:13.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.640][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:13.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:13.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.646][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:08:13.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.665][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.676][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:08:13.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:13.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.688][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.694][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.705][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:13.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:13.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.710][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:13.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:13.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.716][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:13.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:13.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.727][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:13.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:13.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:13.767][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-21 05:08:13.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:13.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:13.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:13.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:13.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-21 05:08:13.797][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-21 05:08:13.800][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-21 05:08:13.802][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-21 05:08:13.804][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-21 05:08:13.805][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:13.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:13.808][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:13.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:13.811][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-21 05:08:13.836][biodb::testContext]
biodb.INFO [2025-01-21 05:08:13.838][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:08:13.840][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-21 05:08:13.842][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-21 05:08:13.843][biodb::testContext]
biodb.INFO [2025-01-21 05:08:13.849][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-21 05:08:13.852][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-01-21 05:08:13.857][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:08:13.859][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-21 05:08:13.861][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-21 05:08:13.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.867][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-21 05:08:13.868][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-21 05:08:13.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.875][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-21 05:08:13.876][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-21 05:08:13.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.882][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-21 05:08:13.884][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-21 05:08:13.885][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-21 05:08:13.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.891][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-21 05:08:13.893][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-21 05:08:13.894][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-21 05:08:13.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.900][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-21 05:08:13.901][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-21 05:08:13.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.907][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-21 05:08:13.908][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-21 05:08:13.910][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-21 05:08:13.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.916][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-21 05:08:13.917][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-21 05:08:13.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.923][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-21 05:08:13.925][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-21 05:08:13.926][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-21 05:08:13.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.932][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-21 05:08:13.934][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-21 05:08:13.935][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-21 05:08:13.937][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-21 05:08:13.938][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-21 05:08:13.940][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-21 05:08:13.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.946][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-21 05:08:13.947][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-21 05:08:13.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.953][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-21 05:08:13.955][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-21 05:08:13.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.961][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-21 05:08:13.962][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-21 05:08:13.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.968][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-21 05:08:13.969][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-21 05:08:13.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.975][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-21 05:08:13.977][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-21 05:08:13.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.982][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-21 05:08:13.983][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-21 05:08:13.988][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-21 05:08:13.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:13.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:13.993][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-21 05:08:13.994][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-21 05:08:13.996][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-21 05:08:13.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:13.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.009][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-21 05:08:14.012][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.013][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-21 05:08:14.014][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.016][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:14.017][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.018][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.020][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.021][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.022][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-21 05:08:14.024][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:14.025][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.026][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-21 05:08:14.028][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:14.029][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.030][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.032][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:08:14.032][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-21 05:08:14.032][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-21 05:08:14.032][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-21 05:08:14.032][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-21 05:08:14.033][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:14.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.036][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.037][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:14.038][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.039][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.041][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.042][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.043][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:14.045][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:14.046][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.047][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.049][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-21 05:08:14.051][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.053][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-21 05:08:14.054][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.055][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:14.057][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.058][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.060][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.061][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.062][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-21 05:08:14.064][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:14.065][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.066][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-21 05:08:14.068][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:14.069][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.071][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.072][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:08:14.072][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-21 05:08:14.072][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-21 05:08:14.072][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-21 05:08:14.072][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-21 05:08:14.073][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:14.075][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.076][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.077][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:14.079][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.080][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.081][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.083][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.084][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:14.085][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:14.087][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.088][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.090][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-21 05:08:14.092][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.093][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-21 05:08:14.095][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.096][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:14.097][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.099][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.100][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.102][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.103][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-21 05:08:14.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:14.106][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.107][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-21 05:08:14.108][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:14.110][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.111][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.113][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.114][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:14.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.118][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:14.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.122][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.123][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.124][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:14.126][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:14.127][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.128][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.130][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-21 05:08:14.132][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.134][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-21 05:08:14.135][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.137][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:14.138][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.139][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.141][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.142][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.143][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-21 05:08:14.152][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:14.154][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.155][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-21 05:08:14.156][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:14.158][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.159][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.160][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.162][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-21 05:08:14.163][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.164][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.165][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:14.167][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.168][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.169][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.170][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.172][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:14.173][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:14.174][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.175][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.177][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:08:14.178][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.198][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[2025-01-21 05:08:14.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.252][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[2025-01-21 05:08:14.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.264][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[2025-01-21 05:08:14.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.284][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-21 05:08:14.293][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-21 05:08:14.295][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-21 05:08:14.298][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-21 05:08:14.300][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-21 05:08:14.301][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-21 05:08:14.303][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-21 05:08:14.305][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-21 05:08:14.307][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-21 05:08:14.309][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-21 05:08:14.311][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-21 05:08:14.313][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-21 05:08:14.315][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-21 05:08:14.317][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-21 05:08:14.319][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-21 05:08:14.321][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-21 05:08:14.322][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-21 05:08:14.324][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-21 05:08:14.326][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-21 05:08:14.328][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-21 05:08:14.330][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-21 05:08:14.332][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-21 05:08:14.334][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-21 05:08:14.337][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-21 05:08:14.339][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-21 05:08:14.341][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-21 05:08:14.343][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-21 05:08:14.345][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-21 05:08:14.347][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-21 05:08:14.349][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-21 05:08:14.350][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-21 05:08:14.352][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-21 05:08:14.354][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-21 05:08:14.356][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-21 05:08:14.358][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-21 05:08:14.360][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-21 05:08:14.362][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-21 05:08:14.364][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-21 05:08:14.366][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-21 05:08:14.368][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-21 05:08:14.370][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-21 05:08:14.372][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-21 05:08:14.374][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-21 05:08:14.376][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-21 05:08:14.378][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-21 05:08:14.380][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-21 05:08:14.382][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-21 05:08:14.384][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-21 05:08:14.386][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-21 05:08:14.387][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-21 05:08:14.389][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-21 05:08:14.391][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-21 05:08:14.393][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-21 05:08:14.395][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-21 05:08:14.397][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-21 05:08:14.399][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-21 05:08:14.401][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-21 05:08:14.403][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-21 05:08:14.405][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-21 05:08:14.407][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-21 05:08:14.409][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-21 05:08:14.411][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-21 05:08:14.413][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-21 05:08:14.415][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-21 05:08:14.417][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-21 05:08:14.419][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-21 05:08:14.421][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-21 05:08:14.423][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-21 05:08:14.425][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-21 05:08:14.427][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-21 05:08:14.429][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-21 05:08:14.438][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-21 05:08:14.441][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-21 05:08:14.443][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-21 05:08:14.444][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-21 05:08:14.446][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-21 05:08:14.448][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-21 05:08:14.450][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-21 05:08:14.452][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-21 05:08:14.454][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-21 05:08:14.456][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-21 05:08:14.458][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-21 05:08:14.460][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-21 05:08:14.462][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-21 05:08:14.464][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-21 05:08:14.465][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-21 05:08:14.466][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.469][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-21 05:08:14.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:14.627][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-21 05:08:14.629][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:14.631][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.633][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.634][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.635][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-21 05:08:14.637][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.638][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-21 05:08:14.640][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.641][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.642][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-21 05:08:14.644][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-21 05:08:14.645][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.647][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-21 05:08:14.648][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-21 05:08:14.649][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-21 05:08:14.651][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-21 05:08:14.652][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-21 05:08:14.652][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-21 05:08:14.652][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-21 05:08:14.654][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-21 05:08:14.655][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.658][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-21 05:08:14.659][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-21 05:08:14.660][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-21 05:08:14.662][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-21 05:08:14.663][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-21 05:08:14.663][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-21 05:08:14.665][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:14.666][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:14.667][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-21 05:08:14.669][self$setPropertyValue]
biodb.DEBUG[2025-01-21 05:08:14.670][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-21 05:08:14.673][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-21 05:08:14.675][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-21 05:08:14.677][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-21 05:08:14.679][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-21 05:08:14.683][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:14.685][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-21 05:08:14.686][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:14.689][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:08:14.690][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:14.692][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:14.693][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-21 05:08:14.695][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-21 05:08:14.696][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-21 05:08:14.696][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-21 05:08:14.698][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-21 05:08:14.699][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-21 05:08:14.700][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-21 05:08:14.701][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-21 05:08:14.703][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-21 05:08:14.705][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:08:14.706][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:14.708][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:14.710][private$addConnectorRules] Create new rule for URL "/home/biocbuild/R/R-4.4.2/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-21 05:08:14.711][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-21 05:08:14.713][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-21 05:08:14.715][biodb::testThat]
biodb.INFO [2025-01-21 05:08:14.716][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-21 05:08:14.717][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-21 05:08:14.726][biodb::testThat]
biodb.DEBUG[2025-01-21 05:08:14.729][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-21 05:08:14.731][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-21 05:08:14.732][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-21 05:08:14.736][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:14.738][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:14.740][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:08:14.742][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:14.744][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:08:14.745][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:08:14.747][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:08:14.748][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:08:14.750][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:08:14.751][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-21 05:08:14.752][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-21 05:08:14.755][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-21 05:08:14.756][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-21 05:08:14.759][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:14.761][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-21 05:08:14.763][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-21 05:08:14.765][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-21 05:08:14.767][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-21 05:08:14.769][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-21 05:08:14.771][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-21 05:08:14.772][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-21 05:08:14.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:14.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:14.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:14.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:14.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:14.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:14.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-21 05:08:14.792][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:14.794][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:14.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.797][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:14.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:14.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.804][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:14.805][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:14.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.808][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.810][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:14.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:14.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.816][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:14.817][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:14.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.820][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.822][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:14.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:14.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.827][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:14.829][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:14.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.831][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.833][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:14.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:14.841][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:14.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.843][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:14.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:14.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.851][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:14.852][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:14.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.855][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:14.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:14.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.862][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:14.864][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:14.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.866][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.868][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:14.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:14.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.881][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:14.882][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:14.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.885][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.887][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:14.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:14.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.892][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:14.894][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:14.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.896][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:14.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:14.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.904][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:14.905][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:14.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.908][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:14.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:14.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.915][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:14.917][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:14.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.920][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:14.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:14.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:14.928][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:14.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.931][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:14.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:14.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.939][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:14.940][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:14.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.943][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:14.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:14.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.951][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:14.952][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:14.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.955][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:14.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:14.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.962][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:14.964][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:14.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.966][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.968][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:14.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:14.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.974][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:14.975][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:14.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.978][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.979][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:14.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:14.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.985][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:14.987][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:14.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.989][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.991][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:14.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:14.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:14.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:14.997][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:08:14.998][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.001][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.003][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:08:15.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.039][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.045][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.051][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.056][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.062][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.108][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.119][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.136][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.176][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.189][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.195][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.224][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.235][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.241][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.247][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.288][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.294][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.299][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.305][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.310][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.316][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.322][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:15.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:15.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:15.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:15.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.334][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:15.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:15.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.347][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:08:15.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.366][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.372][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:08:15.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.409][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:15.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:15.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.415][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:15.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:15.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.427][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:15.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:15.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:15.467][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-21 05:08:15.469][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.475][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.481][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.487][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:15.492][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:08:15.494][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-21 05:08:15.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:15.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:15.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:15.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:15.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:15.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:15.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:15.517][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-21 05:08:15.519][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-21 05:08:15.521][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:15.523][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-21 05:08:15.526][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-21 05:08:15.527][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-21 05:08:15.529][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-21 05:08:15.531][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-21 05:08:15.532][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-21 05:08:15.534][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-21 05:08:15.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:15.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:15.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:15.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:15.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:15.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:15.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-21 05:08:15.553][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.554][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.557][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.564][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.566][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.568][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.570][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:15.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.576][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.577][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.580][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.581][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.587][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.589][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.591][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.593][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.603][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.611][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.612][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.615][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.626][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.634][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.635][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.638][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.640][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:15.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.645][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.647][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.649][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.651][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.664][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.666][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.669][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.671][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.677][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.681][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.682][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.688][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.689][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.692][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.699][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.700][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.703][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.710][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.712][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.714][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:15.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.722][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.726][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:15.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:15.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.733][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.734][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.737][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.738][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.744][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:15.745][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:15.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.748][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:15.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:15.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.756][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:08:15.757][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.759][ef$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.761][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-21 05:08:15.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:15.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:15.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.783][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.788][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.794][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-21 05:08:15.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.799][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.813][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.819][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-21 05:08:15.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-21 05:08:15.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-21 05:08:15.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.859][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.865][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.870][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-21 05:08:15.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.876][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.882][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-21 05:08:15.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.893][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.898][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-21 05:08:15.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.909][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.915][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.920][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:15.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:15.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.931][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.937][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-21 05:08:15.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-21 05:08:15.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-21 05:08:15.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-21 05:08:15.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.966][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:15.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.983][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.989][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:15.994][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-21 05:08:15.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:15.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:16.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:16.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:16.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:16.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:16.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-21 05:08:16.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.022][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.033][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:16.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:16.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.038][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:16.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:16.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.044][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:16.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-21 05:08:16.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.049][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:16.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:16.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.055][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:16.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:16.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.060][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:16.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-21 05:08:16.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.066][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:16.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:16.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:16.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:16.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.077][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-21 05:08:16.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-21 05:08:16.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.082][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:08:16.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.104][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-21 05:08:16.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-21 05:08:16.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.136][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-21 05:08:16.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-21 05:08:16.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.147][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:16.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:16.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.152][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:16.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:16.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:16.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:16.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.164][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:16.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-21 05:08:16.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:16.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:16.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:16.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:16.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:16.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:16.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:16.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:16.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:16.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:16.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-21 05:08:16.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-21 05:08:16.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:16.203][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-21 05:08:16.204][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.210][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.216][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.221][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:16.227][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:08:16.228][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:08:16.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:16.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:16.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:16.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:16.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:16.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:16.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:16.251][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-21 05:08:16.253][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-21 05:08:16.254][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-21 05:08:16.257][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:16.259][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:16.268][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:08:16.271][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:16.272][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:08:16.274][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:08:16.276][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:08:16.277][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:08:16.279][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:08:16.280][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-21 05:08:16.281][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-21 05:08:16.284][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.295][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.300][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.306][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.311][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.317][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:16.322][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:08:16.323][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-21 05:08:16.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:16.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:16.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:16.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:16.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:16.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:16.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-21 05:08:16.339][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.345][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.350][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.362][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.367][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.373][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:16.378][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-21 05:08:16.380][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-21 05:08:16.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:16.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:16.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:16.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:16.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:16.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:16.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-21 05:08:16.400][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-21 05:08:16.402][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-21 05:08:16.403][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-21 05:08:16.405][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:16.407][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:16.409][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-21 05:08:16.411][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-21 05:08:16.419][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-21 05:08:16.421][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-21 05:08:16.423][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-21 05:08:16.425][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-21 05:08:16.426][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-21 05:08:16.428][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-21 05:08:16.429][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-21 05:08:16.432][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.437][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.443][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.448][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.454][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.459][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.465][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:16.470][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-21 05:08:16.472][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-21 05:08:16.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:16.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:16.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:16.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:16.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:16.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:16.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-21 05:08:16.487][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.493][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.499][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.504][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.510][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.515][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-21 05:08:16.521][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-21 05:08:16.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-21 05:08:16.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-21 05:08:16.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-21 05:08:16.526][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-21 05:08:16.528][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-21 05:08:16.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-21 05:08:16.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:16.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:16.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:16.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:16.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:16.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-21 05:08:16.551][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-21 05:08:16.552][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-21 05:08:16.554][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-21 05:08:16.555][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-21 05:08:16.556][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-21 05:08:16.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-21 05:08:16.559][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-21 05:08:16.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-21 05:08:16.561][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-21 05:08:16.562][FUN] Functions in observer 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
12.000 0.442 34.496