Pierrick Roger
| Snapshot Date: 2024-11-28 13:00 -0500 (Thu, 28 Nov 2024) |
| 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 2024-12-02 12:03 -0500 (Mon, 02 Dec 2024).
| 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" | 4739 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4482 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4510 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4462 |
| 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 | | ||||||||
|
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. |
| Package: biodbHmdb |
| Version: 1.12.0 |
| Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings biodbHmdb_1.12.0.tar.gz |
| StartedAt: 2024-11-28 20:43:15 -0500 (Thu, 28 Nov 2024) |
| EndedAt: 2024-11-28 20:48:04 -0500 (Thu, 28 Nov 2024) |
| EllapsedTime: 288.9 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
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###
### Running command:
###
### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --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: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* 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 ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
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: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
* checking installed package size ... NOTE
installed size is 7.2Mb
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 re-building of vignette outputs ... OK
* 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/bbs-3.20-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.20-bioc/R/site-library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.2.0-23ubuntu4) 13.2.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -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() :
| ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.20-bioc/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/bbs-3.20-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.20-bioc/R/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: x86_64-pc-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 [2024-11-28 20:47:26.080][biodb::testContext]
biodb.INFO [2024-11-28 20:47:26.082][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:26.083][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-11-28 20:47:26.084][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:26.084][biodb::testContext]
biodb.INFO [2024-11-28 20:47:26.086][biodb::testThat]
biodb.INFO [2024-11-28 20:47:26.087][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-11-28 20:47:26.088][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:26.088][biodb::testThat]
biodb.INFO [2024-11-28 20:47:26.169][biodb::testContext]
biodb.INFO [2024-11-28 20:47:26.170][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:26.171][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-11-28 20:47:26.172][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:26.173][biodb::testContext]
biodb.INFO [2024-11-28 20:47:26.180][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-28 20:47:26.182][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-28 20:47:26.194][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:26.195][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-28 20:47:26.196][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-28 20:47:26.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.199][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-28 20:47:26.216][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-28 20:47:26.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.219][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-28 20:47:26.220][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-28 20:47:26.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.223][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-28 20:47:26.224][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-28 20:47:26.225][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-28 20:47:26.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.228][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-28 20:47:26.229][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-28 20:47:26.230][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-28 20:47:26.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.233][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-28 20:47:26.234][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-28 20:47:26.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.237][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-28 20:47:26.238][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-28 20:47:26.239][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-28 20:47:26.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.242][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-28 20:47:26.243][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-28 20:47:26.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.246][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[2024-11-28 20:47:26.247][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-28 20:47:26.247][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-28 20:47:26.248][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-28 20:47:26.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.252][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-28 20:47:26.253][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-28 20:47:26.253][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-28 20:47:26.254][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-28 20:47:26.255][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-28 20:47:26.256][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-28 20:47:26.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.258][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[2024-11-28 20:47:26.259][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-28 20:47:26.260][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-28 20:47:26.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.263][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-28 20:47:26.264][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-28 20:47:26.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.268][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-28 20:47:26.269][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-28 20:47:26.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.272][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-28 20:47:26.273][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-28 20:47:26.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.276][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-28 20:47:26.277][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-28 20:47:26.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.280][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-28 20:47:26.281][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-28 20:47:26.285][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-28 20:47:26.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.288][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-28 20:47:26.289][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-28 20:47:26.290][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-28 20:47:26.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.296][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-28 20:47:26.326][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.340][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-28 20:47:26.341][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.342][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:26.343][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.349][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.350][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.351][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.352][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-28 20:47:26.352][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:26.353][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.354][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-28 20:47:26.355][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:26.356][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.357][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.358][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:26.358][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-28 20:47:26.358][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-28 20:47:26.358][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-28 20:47:26.358][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-28 20:47:26.359][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:26.360][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.360][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.361][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:26.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.364][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.365][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.365][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:26.366][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:26.367][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.368][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.369][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-28 20:47:26.371][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.371][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-28 20:47:26.372][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.373][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:26.374][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.375][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.376][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.377][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.378][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-28 20:47:26.379][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:26.380][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.388][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-28 20:47:26.389][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:26.390][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.391][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.392][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:26.392][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-28 20:47:26.392][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-28 20:47:26.392][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-28 20:47:26.392][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-28 20:47:26.393][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:26.394][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.396][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:26.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.399][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.400][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.401][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:26.402][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:26.403][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.404][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.405][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-28 20:47:26.407][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.408][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-28 20:47:26.409][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.410][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:26.411][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.412][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.413][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.414][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.415][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-28 20:47:26.416][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:26.417][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.418][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-28 20:47:26.419][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:26.420][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.421][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.422][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.423][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:26.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.425][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.426][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:26.427][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.428][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.429][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.430][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.431][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:26.432][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:26.433][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.434][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.435][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-28 20:47:26.437][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.438][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-28 20:47:26.439][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.440][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:26.441][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.442][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.443][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.444][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.445][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-28 20:47:26.446][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:26.447][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.448][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-28 20:47:26.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:26.450][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.451][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.452][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.453][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:26.454][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.455][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.456][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:26.457][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.459][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.460][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.461][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:26.462][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:26.463][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.464][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.468][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:26.469][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.470][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[2024-11-28 20:47:26.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.479][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[2024-11-28 20:47:26.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.484][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[2024-11-28 20:47:26.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.519][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[2024-11-28 20:47:26.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.540][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[2024-11-28 20:47:26.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.549][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.DEBUG[2024-11-28 20:47:26.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.554][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[2024-11-28 20:47:26.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.558][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[2024-11-28 20:47:26.559][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-28 20:47:26.564][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-28 20:47:26.565][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-28 20:47:26.567][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-28 20:47:26.568][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-28 20:47:26.570][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-28 20:47:26.571][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-28 20:47:26.572][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-28 20:47:26.574][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-28 20:47:26.575][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-28 20:47:26.576][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-28 20:47:26.578][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-28 20:47:26.579][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-28 20:47:26.580][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-28 20:47:26.581][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-28 20:47:26.583][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-28 20:47:26.584][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-28 20:47:26.585][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-28 20:47:26.586][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-28 20:47:26.588][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-28 20:47:26.589][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-28 20:47:26.590][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-28 20:47:26.591][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-28 20:47:26.593][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-28 20:47:26.594][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-28 20:47:26.595][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-28 20:47:26.596][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-28 20:47:26.598][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-28 20:47:26.599][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-28 20:47:26.600][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-28 20:47:26.601][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-28 20:47:26.603][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-28 20:47:26.604][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-28 20:47:26.605][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-28 20:47:26.606][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-28 20:47:26.608][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-28 20:47:26.609][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-28 20:47:26.610][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-28 20:47:26.611][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-28 20:47:26.612][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-28 20:47:26.614][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-28 20:47:26.615][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-28 20:47:26.616][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-28 20:47:26.618][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-28 20:47:26.619][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-28 20:47:26.620][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-28 20:47:26.621][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-28 20:47:26.623][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-28 20:47:26.624][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-28 20:47:26.625][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-28 20:47:26.626][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-28 20:47:26.628][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-28 20:47:26.629][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-28 20:47:26.630][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-28 20:47:26.631][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-28 20:47:26.633][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-28 20:47:26.634][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-28 20:47:26.635][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-28 20:47:26.636][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-28 20:47:26.638][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-28 20:47:26.639][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-28 20:47:26.640][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-28 20:47:26.641][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-28 20:47:26.643][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-28 20:47:26.644][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-28 20:47:26.645][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-28 20:47:26.646][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-28 20:47:26.648][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-28 20:47:26.649][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-28 20:47:26.650][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-28 20:47:26.651][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-28 20:47:26.653][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-28 20:47:26.654][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-28 20:47:26.655][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-28 20:47:26.656][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-28 20:47:26.658][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-28 20:47:26.659][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-28 20:47:26.660][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-28 20:47:26.661][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-28 20:47:26.663][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-28 20:47:26.664][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-28 20:47:26.665][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-28 20:47:26.666][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-28 20:47:26.672][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-28 20:47:26.674][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-28 20:47:26.676][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:26.677][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.679][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:26.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:26.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.782][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[2024-11-28 20:47:26.783][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-28 20:47:26.792][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:26.794][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.795][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:26.798][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.799][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-28 20:47:26.800][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.801][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.801][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-28 20:47:26.802][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:26.803][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.804][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-28 20:47:26.805][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-28 20:47:26.806][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-28 20:47:26.807][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:26.808][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:26.808][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-28 20:47:26.808][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-28 20:47:26.809][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-28 20:47:26.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.811][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:26.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:26.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:26.814][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:26.815][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-28 20:47:26.815][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-28 20:47:26.816][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:26.817][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:26.817][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:26.818][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:26.824][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-28 20:47:26.825][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-28 20:47:26.827][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-28 20:47:26.828][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-28 20:47:26.830][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-28 20:47:26.850][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:26.851][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-28 20:47:26.855][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:26.890][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:26.894][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:26.895][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:26.896][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-28 20:47:26.897][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-28 20:47:26.898][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-28 20:47:26.898][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-28 20:47:26.899][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:26.899][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:26.900][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-28 20:47:26.901][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-28 20:47:26.902][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:26.918][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:26.919][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:26.920][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:26.921][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:26.922][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:26.923][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-28 20:47:26.930][biodb::testThat]
biodb.INFO [2024-11-28 20:47:26.930][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-11-28 20:47:26.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:26.932][biodb::testThat]
biodb.TRACE[2024-11-28 20:47:26.936][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-11-28 20:47:26.937][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-28 20:47:26.941][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-28 20:47:26.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:26.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:26.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:26.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:26.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:26.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:26.956][FUN] Functions in observer BiodbConfig: [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[2024-11-28 20:47:26.966][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:26.967][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:26.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:26.969][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:26.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:26.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:26.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:26.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:26.985][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:26.986][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:26.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:26.987][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.011][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.015][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.016][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.018][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.019][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.023][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.024][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.025][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.027][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.040][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.045][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.046][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.048][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.052][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.053][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.055][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.056][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.060][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.061][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.063][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.064][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.068][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.069][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.070][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.072][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.075][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.076][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.078][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.083][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.084][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.085][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.087][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.090][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.093][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.098][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.099][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.101][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.105][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.106][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.108][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.113][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.114][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.116][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.120][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.121][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.123][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.128][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.129][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.131][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.132][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.136][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:27.137][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.138][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.140][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:27.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.188][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.200][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.203][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.239][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.243][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.254][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.257][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.261][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.268][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.272][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.282][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.312][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.315][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.319][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.344][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.348][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.351][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.355][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.359][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.362][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.366][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.373][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.377][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:27.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.380][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.391][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:27.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.426][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.433][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.436][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.443][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:27.469][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-28 20:47:27.471][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-28 20:47:27.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-28 20:47:27.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.474][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-28 20:47:27.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-28 20:47:27.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.478][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-28 20:47:27.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-28 20:47:27.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.481][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-28 20:47:27.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-28 20:47:27.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.506][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.536][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.539][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.543][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:27.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.570][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.571][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.572][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:27.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:27.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.584][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.587][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.591][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.594][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.595][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.597][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.598][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:27.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.619][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.620][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.622][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:27.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.633][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.637][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.640][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.644][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.645][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.646][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.647][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:27.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.671][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:27.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.686][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.690][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.697][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.698][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.699][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.700][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:27.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.714][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.721][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.722][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.724][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.725][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:27.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:27.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.735][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.739][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.743][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.746][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.747][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.749][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.750][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:27.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:27.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.764][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.771][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.772][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.774][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.775][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:27.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:27.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.785][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.788][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.792][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.796][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.797][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.798][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.799][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:27.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.825][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.826][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.827][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:27.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.839][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.846][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.850][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.851][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.852][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.853][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:27.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.863][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.871][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.874][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.875][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.877][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.878][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:27.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.888][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.892][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.896][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.899][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.900][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.902][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.903][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:27.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.913][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.917][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.924][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.925][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.926][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:27.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.953][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.954][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.955][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:27.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:27.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.977][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.978][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.980][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:27.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.991][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.995][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:27.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:27.998][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:27.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.002][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.003][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.005][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.006][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.016][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.017][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.019][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.023][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.024][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.025][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.030][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.031][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.032][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.039][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.043][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.044][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.045][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.049][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.050][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.052][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.056][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.057][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.059][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.062][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.063][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.065][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.073][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.074][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.076][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.080][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:28.081][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:28.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.082][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.086][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:28.087][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:28.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.089][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.093][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.094][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.095][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.099][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.100][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.102][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.106][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.108][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.112][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.113][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.115][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.119][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.120][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.122][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.126][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.127][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.128][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.132][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:28.133][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:28.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.135][ef$get] fields variable is a list.
biodb.INFO [2024-11-28 20:47:28.141][biodb::testThat]
biodb.INFO [2024-11-28 20:47:28.142][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-11-28 20:47:28.143][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:28.144][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:28.157][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-28 20:47:28.163][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2024-11-28 20:47:28.167][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-11-28 20:47:28.168][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-11-28 20:47:28.169][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-11-28 20:47:28.170][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-11-28 20:47:28.172][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-11-28 20:47:28.173][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-11-28 20:47:28.174][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-11-28 20:47:28.176][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-11-28 20:47:28.177][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-11-28 20:47:28.178][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker61b33634cd2b5marker".
biodb.TRACE[2024-11-28 20:47:28.179][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-11-28 20:47:28.180][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-11-28 20:47:28.181][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-11-28 20:47:28.183][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-11-28 20:47:28.184][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-11-28 20:47:28.185][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-11-28 20:47:28.186][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-11-28 20:47:28.191][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-11-28 20:47:28.192][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-11-28 20:47:28.193][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-11-28 20:47:28.194][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-11-28 20:47:28.202][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-11-28 20:47:28.203][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-28 20:47:28.204][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-11-28 20:47:28.205][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-11-28 20:47:28.206][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker61b335d657ed0marker".
biodb.TRACE[2024-11-28 20:47:28.207][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-11-28 20:47:28.213][self$addFilesToCache] Done adding files.
biodb.TRACE[2024-11-28 20:47:28.214][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-28 20:47:28.216][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-28 20:47:28.217][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-28 20:47:28.218][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-28 20:47:28.240][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-28 20:47:28.241][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-28 20:47:28.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:28.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:28.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:28.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:28.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:28.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:28.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-28 20:47:28.254][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.255][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.257][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.262][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.263][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.265][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.266][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.270][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.270][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.272][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.273][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.277][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.278][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.280][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.281][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.285][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.286][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.287][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.292][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.293][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.295][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.300][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.301][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.303][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.304][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.307][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.308][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.310][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.311][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.315][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.316][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.318][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.319][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.323][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.323][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.325][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.326][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.330][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:28.335][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:28.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.337][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.338][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:28.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:28.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.341][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:28.342][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:28.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.344][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:28.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:28.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.349][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.350][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.351][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.356][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.357][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.359][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.364][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.365][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.366][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.371][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.372][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.374][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.375][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.379][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:28.380][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:28.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.381][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.382][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:28.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:28.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.386][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:28.387][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.389][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.390][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:28.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.405][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.408][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.412][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:28.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.415][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.419][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.422][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:28.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:28.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:28.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.447][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.458][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:28.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.465][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.469][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:28.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.473][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.476][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.480][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:28.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.483][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.487][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.490][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:28.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:28.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.498][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:28.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:28.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.501][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:28.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:28.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:28.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:28.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:28.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:28.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:28.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:28.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.526][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.530][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.533][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:28.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:28.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.558][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.562][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.565][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:28.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.569][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.572][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:28.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:28.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:28.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.590][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:28.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:28.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.594][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:28.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.605][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.608][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.627][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.631][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:28.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:28.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.635][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:28.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:28.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.642][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:28.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:28.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:28.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:28.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.667][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-28 20:47:28.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-11-28 20:47:28.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-11-28 20:47:28.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-11-28 20:47:28.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-11-28 20:47:28.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-11-28 20:47:28.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-11-28 20:47:28.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-28 20:47:28.685][biodb::testThat]
biodb.INFO [2024-11-28 20:47:28.685][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-11-28 20:47:28.686][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:28.687][biodb::testThat]
biodb.TRACE[2024-11-28 20:47:28.690][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.691][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.693][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.694][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-11-28 20:47:28.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.725][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.734][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-11-28 20:47:28.735][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-28 20:47:28.736][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-28 20:47:28.737][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-28 20:47:28.739][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.740][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.741][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:28.742][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.743][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:28.744][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:28.745][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:28.746][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:28.747][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:28.748][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-28 20:47:28.749][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-28 20:47:28.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:28.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:28.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.765][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:28.766][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-28 20:47:28.767][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-28 20:47:28.777][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.778][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.780][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.781][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-11-28 20:47:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.798][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.804][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[2024-11-28 20:47:28.857][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-28 20:47:28.858][private$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[2024-11-28 20:47:28.859][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-11-28 20:47:28.872][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.873][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.875][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:28.876][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.877][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:28.891][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:28.892][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:28.893][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:28.894][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:28.895][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-28 20:47:28.896][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-28 20:47:28.897][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.901][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.905][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.908][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:28.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:28.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.912][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:28.913][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-28 20:47:28.913][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-11-28 20:47:28.923][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.925][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.930][ef$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.931][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-11-28 20:47:28.941][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.945][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.948][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.954][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-11-28 20:47:28.956][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-11-28 20:47:28.956][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-28 20:47:28.957][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-11-28 20:47:28.959][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.960][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.961][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:28.963][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:28.963][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:28.965][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:28.966][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:28.966][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:28.967][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:28.968][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-28 20:47:28.969][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-28 20:47:28.971][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.974][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.978][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:28.982][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:28.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:28.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:28.985][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:28.986][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-28 20:47:28.987][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-11-28 20:47:29.000][biodb::testThat]
biodb.INFO [2024-11-28 20:47:29.001][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-11-28 20:47:29.002][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:29.002][biodb::testThat]
biodb.TRACE[2024-11-28 20:47:29.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:29.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:29.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:29.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:29.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:29.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:29.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:29.031][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-11-28 20:47:29.032][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-28 20:47:29.033][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-11-28 20:47:29.034][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:29.036][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:29.037][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:29.038][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:29.039][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:29.040][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:29.041][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:29.042][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:29.043][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:29.044][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-28 20:47:29.045][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-28 20:47:29.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:29.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:29.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:29.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:29.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.058][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:29.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:29.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:29.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:29.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:29.065][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:29.066][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-11-28 20:47:29.078][biodb::testThat]
biodb.INFO [2024-11-28 20:47:29.079][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-11-28 20:47:29.080][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:29.081][biodb::testThat]
biodb.TRACE[2024-11-28 20:47:29.099][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.103][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.107][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-28 20:47:29.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-28 20:47:29.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.110][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-28 20:47:29.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-28 20:47:29.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.152][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.155][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-11-28 20:47:29.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-11-28 20:47:29.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-11-28 20:47:29.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:29.167][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-11-28 20:47:29.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-11-28 20:47:29.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:29.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-28 20:47:29.175][biodb::testThat]
biodb.INFO [2024-11-28 20:47:29.176][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-11-28 20:47:29.177][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:29.178][biodb::testThat]
biodb.INFO [2024-11-28 20:47:29.184][biodb::testThat]
biodb.INFO [2024-11-28 20:47:29.185][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-11-28 20:47:29.186][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:29.187][biodb::testThat]
biodb.INFO [2024-11-28 20:47:29.193][biodb::testThat]
biodb.INFO [2024-11-28 20:47:29.194][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-11-28 20:47:29.195][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:29.196][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:29.199][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-11-28 20:47:47.877][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-11-28 20:47:47.984][biodb::testThat]
biodb.INFO [2024-11-28 20:47:47.986][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-11-28 20:47:47.988][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:47.990][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:54.091][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-11-28 20:47:54.123][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:54.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:54.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.130][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.132][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:54.135][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:54.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.139][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.141][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:54.144][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:54.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.148][ef$get] fields variable is a list.
biodb.INFO [2024-11-28 20:47:54.151][biodb::testThat]
biodb.INFO [2024-11-28 20:47:54.153][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-11-28 20:47:54.155][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:54.157][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:54.160][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-11-28 20:47:54.254][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-28 20:47:54.257][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.258][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-28 20:47:54.275][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-11-28 20:47:54.277][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-28 20:47:54.278][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-28 20:47:54.279][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-28 20:47:54.280][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.282][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-28 20:47:54.283][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-28 20:47:54.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:54.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.294][FUN] Functions in observer BiodbConfig: [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[2024-11-28 20:47:54.296][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.300][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:54.326][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-28 20:47:54.327][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-11-28 20:47:54.367][biodb::testThat]
biodb.INFO [2024-11-28 20:47:54.368][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-11-28 20:47:54.369][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:54.370][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:54.377][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-11-28 20:47:54.378][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-11-28 20:47:54.379][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-28 20:47:54.380][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.381][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-28 20:47:54.383][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-11-28 20:47:54.384][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-11-28 20:47:54.385][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-11-28 20:47:54.386][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-28 20:47:54.388][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.389][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-28 20:47:54.390][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-28 20:47:54.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:54.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.399][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.TRACE[2024-11-28 20:47:54.401][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.405][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:54.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:54.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:54.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:54.430][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-11-28 20:47:54.431][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-11-28 20:47:54.432][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-11-28 20:47:54.442][biodb::testThat]
biodb.INFO [2024-11-28 20:47:54.443][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-11-28 20:47:54.444][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:54.445][biodb::testThat]
biodb.INFO [2024-11-28 20:47:54.469][biodb::testThat]
biodb.INFO [2024-11-28 20:47:54.470][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-11-28 20:47:54.470][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:54.471][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:54.473][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.475][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.476][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:54.477][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.478][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:54.479][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:54.480][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:54.481][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:54.482][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-11-28 20:47:54.488][biodb::testThat]
biodb.INFO [2024-11-28 20:47:54.489][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-11-28 20:47:54.490][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:54.491][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:54.493][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.495][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.496][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:54.497][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:54.498][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:54.499][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:54.500][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:54.501][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:54.502][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-11-28 20:47:54.509][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:54.510][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:54.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.512][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.513][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:54.514][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:54.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.515][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:54.516][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:54.517][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:54.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:54.519][ef$get] fields variable is a list.
biodb.INFO [2024-11-28 20:47:54.520][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-28 20:47:54.521][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-28 20:47:54.528][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-28 20:47:54.529][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-28 20:47:54.530][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.532][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.533][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.534][FUN] Functions in observer BiodbConfig: [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 [2024-11-28 20:47:54.537][biodb::testContext]
biodb.INFO [2024-11-28 20:47:54.538][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:54.539][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-11-28 20:47:54.540][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:54.541][biodb::testContext]
biodb.INFO [2024-11-28 20:47:54.544][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-28 20:47:54.546][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-28 20:47:54.549][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:54.550][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-28 20:47:54.551][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-28 20:47:54.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.554][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-28 20:47:54.555][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-28 20:47:54.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.558][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[2024-11-28 20:47:54.559][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-28 20:47:54.559][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-28 20:47:54.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.567][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-28 20:47:54.568][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-28 20:47:54.569][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-28 20:47:54.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.572][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-28 20:47:54.573][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-28 20:47:54.574][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-28 20:47:54.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.577][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-28 20:47:54.578][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-28 20:47:54.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.581][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[2024-11-28 20:47:54.582][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-28 20:47:54.583][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-28 20:47:54.583][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-28 20:47:54.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.587][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-28 20:47:54.588][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-28 20:47:54.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.590][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[2024-11-28 20:47:54.591][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-28 20:47:54.592][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-28 20:47:54.593][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-28 20:47:54.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.596][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-28 20:47:54.597][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-28 20:47:54.598][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-28 20:47:54.599][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-28 20:47:54.600][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-28 20:47:54.601][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-28 20:47:54.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.604][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-28 20:47:54.605][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-28 20:47:54.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.608][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-28 20:47:54.609][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-28 20:47:54.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.612][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-28 20:47:54.613][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-28 20:47:54.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.617][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-28 20:47:54.618][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-28 20:47:54.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.621][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-28 20:47:54.622][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-28 20:47:54.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.625][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-28 20:47:54.626][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-28 20:47:54.629][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-28 20:47:54.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.632][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-28 20:47:54.633][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-28 20:47:54.634][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-28 20:47:54.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.638][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-28 20:47:54.639][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.654][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-11-28 20:47:54.655][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.660][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:54.661][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.662][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.663][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.664][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.665][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-28 20:47:54.666][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:54.667][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.668][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-28 20:47:54.669][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:54.670][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.671][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.671][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:54.671][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-28 20:47:54.671][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-28 20:47:54.671][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-28 20:47:54.671][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-28 20:47:54.672][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:54.673][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.674][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.675][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:54.676][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.677][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.677][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.678][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.679][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:54.680][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:54.681][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.682][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.683][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-28 20:47:54.685][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.686][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-28 20:47:54.686][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.687][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:54.688][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.689][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.690][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.691][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.692][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-28 20:47:54.693][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:54.694][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.695][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-28 20:47:54.696][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:54.696][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.697][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.698][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:54.698][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-28 20:47:54.698][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-28 20:47:54.698][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-28 20:47:54.698][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-28 20:47:54.699][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:54.700][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.701][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.702][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:54.703][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.703][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.704][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.705][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.706][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:54.707][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:54.708][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.709][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.710][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-28 20:47:54.711][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.712][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-11-28 20:47:54.713][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.714][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:54.715][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.716][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.717][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.718][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.719][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-28 20:47:54.720][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:54.721][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.722][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-28 20:47:54.722][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:54.723][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.724][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.725][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.726][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:54.727][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.728][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.729][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:54.730][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.730][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.731][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.732][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.733][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:54.734][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:54.735][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.736][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.737][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-28 20:47:54.738][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.739][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-28 20:47:54.740][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.741][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:54.742][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.743][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.744][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.745][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.746][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-28 20:47:54.747][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:54.748][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.749][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-28 20:47:54.750][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:54.750][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.751][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:54.752][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.753][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:54.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.761][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:54.762][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:54.762][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:54.763][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:54.764][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.765][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:54.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:54.767][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:54.768][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:54.769][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:54.770][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.774][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[2024-11-28 20:47:54.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.782][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[2024-11-28 20:47:54.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.794][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[2024-11-28 20:47:54.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.807][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[2024-11-28 20:47:54.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.819][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[2024-11-28 20:47:54.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.823][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[2024-11-28 20:47:54.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.831][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[2024-11-28 20:47:54.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.840][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-28 20:47:54.841][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-28 20:47:54.842][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-28 20:47:54.844][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-28 20:47:54.845][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-28 20:47:54.846][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-28 20:47:54.847][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-28 20:47:54.849][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-28 20:47:54.854][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-28 20:47:54.855][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-28 20:47:54.857][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-28 20:47:54.858][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-28 20:47:54.859][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-28 20:47:54.860][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-28 20:47:54.862][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-28 20:47:54.863][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-28 20:47:54.864][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-28 20:47:54.865][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-28 20:47:54.867][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-28 20:47:54.868][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-28 20:47:54.869][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-28 20:47:54.870][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-28 20:47:54.872][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-28 20:47:54.873][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-28 20:47:54.874][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-28 20:47:54.876][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-28 20:47:54.877][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-28 20:47:54.878][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-28 20:47:54.879][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-28 20:47:54.881][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-28 20:47:54.882][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-28 20:47:54.883][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-28 20:47:54.885][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-28 20:47:54.886][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-28 20:47:54.887][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-28 20:47:54.888][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-28 20:47:54.890][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-28 20:47:54.891][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-28 20:47:54.892][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-28 20:47:54.893][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-28 20:47:54.895][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-28 20:47:54.896][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-28 20:47:54.897][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-28 20:47:54.899][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-28 20:47:54.900][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-28 20:47:54.901][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-28 20:47:54.903][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-28 20:47:54.904][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-28 20:47:54.905][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-28 20:47:54.906][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-28 20:47:54.908][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-28 20:47:54.909][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-28 20:47:54.910][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-28 20:47:54.911][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-28 20:47:54.913][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-28 20:47:54.914][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-28 20:47:54.915][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-28 20:47:54.917][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-28 20:47:54.918][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-28 20:47:54.919][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-28 20:47:54.920][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-28 20:47:54.922][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-28 20:47:54.923][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-28 20:47:54.924][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-28 20:47:54.925][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-28 20:47:54.927][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-28 20:47:54.928][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-28 20:47:54.929][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-28 20:47:54.931][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-28 20:47:54.932][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-28 20:47:54.933][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-28 20:47:54.934][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-28 20:47:54.936][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-28 20:47:54.937][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-28 20:47:54.938][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-28 20:47:54.939][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-28 20:47:54.941][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-28 20:47:54.942][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-28 20:47:54.948][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-28 20:47:54.949][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-28 20:47:54.951][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-28 20:47:54.952][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-28 20:47:54.953][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-28 20:47:54.954][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-28 20:47:54.956][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-28 20:47:54.957][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:54.957][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.959][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:54.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:54.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:54.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:54.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:54.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:54.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:54.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.061][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-28 20:47:55.062][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:55.064][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.065][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.066][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:55.068][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.069][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-28 20:47:55.070][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.071][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.071][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-28 20:47:55.072][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:55.073][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.074][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-28 20:47:55.075][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-28 20:47:55.076][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-28 20:47:55.077][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.078][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:55.078][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-28 20:47:55.078][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-28 20:47:55.079][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-28 20:47:55.080][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.081][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.081][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:55.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.084][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.085][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-28 20:47:55.085][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-28 20:47:55.086][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:55.087][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:55.087][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.088][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.089][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-28 20:47:55.091][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-28 20:47:55.092][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-28 20:47:55.094][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-28 20:47:55.095][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-28 20:47:55.098][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:55.099][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-28 20:47:55.100][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:55.101][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:55.102][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:55.103][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:55.104][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-28 20:47:55.105][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-28 20:47:55.106][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-28 20:47:55.106][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-28 20:47:55.107][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:55.108][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:55.109][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-28 20:47:55.110][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-28 20:47:55.111][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:55.112][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:55.113][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:55.114][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:55.115][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:55.116][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:55.117][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-28 20:47:55.118][biodb::testThat]
biodb.INFO [2024-11-28 20:47:55.119][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-11-28 20:47:55.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:55.121][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:55.124][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:55.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:55.127][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:55.128][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:55.129][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:55.130][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:55.131][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:55.132][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:55.133][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:55.139][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-11-28 20:47:55.144][biodb::testThat]
biodb.INFO [2024-11-28 20:47:55.145][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-11-28 20:47:55.146][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:55.146][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:55.148][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-28 20:47:55.149][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-28 20:47:55.150][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:55.151][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-28 20:47:55.153][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-28 20:47:55.154][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-28 20:47:55.156][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-28 20:47:55.157][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-28 20:47:55.158][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-28 20:47:55.159][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-28 20:47:55.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:55.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.168][FUN] Functions in observer BiodbConfig: [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[2024-11-28 20:47:55.171][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.174][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.179][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.180][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.181][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.183][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.186][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.187][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.189][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.190][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.194][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.195][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.197][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.198][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.202][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.203][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.204][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.209][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.210][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.212][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.217][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.218][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.219][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.224][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.225][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.227][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.228][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.232][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.237][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.239][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.240][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.244][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.245][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.246][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.251][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:55.252][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:55.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.254][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.255][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:55.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:55.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.258][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:55.259][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:55.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.261][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.262][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:55.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:55.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.266][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.276][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.281][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.282][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.288][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:55.289][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:55.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.291][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.292][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:55.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:55.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.296][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:55.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:55.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.298][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.300][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:55.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:55.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.303][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:55.304][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.306][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.307][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:55.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.322][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.325][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.333][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:55.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.337][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.341][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.344][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:55.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:55.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:55.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.370][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.374][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.378][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:55.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.381][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.388][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:55.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.392][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.396][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.399][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:55.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.403][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:55.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:55.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.407][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:55.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:55.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:55.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:55.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.414][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:55.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:55.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.417][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:55.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:55.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:55.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:55.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:55.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:55.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:55.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:55.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:55.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:55.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.450][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.454][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.457][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:55.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:55.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.475][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.483][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.486][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.490][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:55.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.493][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.497][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.501][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:55.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.504][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:55.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:55.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:55.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:55.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.511][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:55.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:55.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.515][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:55.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.533][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:55.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:55.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.538][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.545][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:55.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:55.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.556][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:55.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:55.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.560][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:55.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:55.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.567][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:55.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:55.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:55.592][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-28 20:47:55.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:55.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:55.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:55.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:55.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-11-28 20:47:55.609][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-28 20:47:55.610][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-28 20:47:55.611][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-28 20:47:55.611][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-28 20:47:55.612][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:55.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:55.614][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.620][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-28 20:47:55.624][biodb::testContext]
biodb.INFO [2024-11-28 20:47:55.624][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:55.625][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-11-28 20:47:55.626][biodb::testContext] ********************************************************************************
biodb.INFO [2024-11-28 20:47:55.627][biodb::testContext]
biodb.INFO [2024-11-28 20:47:55.630][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2024-11-28 20:47:55.632][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-11-28 20:47:55.635][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:55.636][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-11-28 20:47:55.637][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-11-28 20:47:55.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.640][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-11-28 20:47:55.641][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-11-28 20:47:55.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.645][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-11-28 20:47:55.646][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-11-28 20:47:55.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.649][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-11-28 20:47:55.650][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-11-28 20:47:55.651][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-11-28 20:47:55.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.654][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-11-28 20:47:55.655][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-11-28 20:47:55.656][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-11-28 20:47:55.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.659][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-11-28 20:47:55.660][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-11-28 20:47:55.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.663][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-11-28 20:47:55.664][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-11-28 20:47:55.665][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-11-28 20:47:55.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.668][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-11-28 20:47:55.669][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-11-28 20:47:55.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.673][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-11-28 20:47:55.674][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-11-28 20:47:55.674][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-11-28 20:47:55.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.678][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-11-28 20:47:55.679][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-11-28 20:47:55.680][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-11-28 20:47:55.680][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-11-28 20:47:55.681][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-11-28 20:47:55.682][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-11-28 20:47:55.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.686][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-11-28 20:47:55.687][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-11-28 20:47:55.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.690][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-11-28 20:47:55.691][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-11-28 20:47:55.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.694][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-11-28 20:47:55.695][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-11-28 20:47:55.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.698][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-11-28 20:47:55.699][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-11-28 20:47:55.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.708][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-11-28 20:47:55.709][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-11-28 20:47:55.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.713][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-11-28 20:47:55.714][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-11-28 20:47:55.718][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-11-28 20:47:55.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.740][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-11-28 20:47:55.741][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-11-28 20:47:55.743][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-11-28 20:47:55.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.747][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-11-28 20:47:55.748][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.749][self$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[2024-11-28 20:47:55.750][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.751][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:55.752][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.753][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.754][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.755][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.756][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-28 20:47:55.757][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:55.758][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.759][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-11-28 20:47:55.760][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:55.761][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.762][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.763][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:55.763][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-28 20:47:55.763][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-28 20:47:55.763][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-28 20:47:55.763][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-28 20:47:55.764][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:55.765][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.766][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.767][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:55.768][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.769][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.770][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.771][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.772][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:55.773][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:55.774][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.774][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.776][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-11-28 20:47:55.777][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.778][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-11-28 20:47:55.779][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.780][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:55.781][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.782][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.783][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.784][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.785][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-28 20:47:55.786][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:55.787][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.788][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-11-28 20:47:55.789][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:55.790][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.791][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.792][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:55.792][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-11-28 20:47:55.792][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-11-28 20:47:55.792][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-11-28 20:47:55.792][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-11-28 20:47:55.793][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:55.794][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.795][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.796][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:55.797][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.798][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.799][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.800][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.801][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:55.802][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:55.803][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.804][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.805][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-11-28 20:47:55.807][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.808][self$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[2024-11-28 20:47:55.809][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.810][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:55.811][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.812][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.812][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.813][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.814][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-11-28 20:47:55.815][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:55.816][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.817][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-11-28 20:47:55.818][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:55.819][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.820][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.821][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.822][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:55.823][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.824][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.825][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:55.826][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.827][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.828][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.829][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.829][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:55.830][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:55.831][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.832][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.833][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-11-28 20:47:55.835][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.840][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-11-28 20:47:55.841][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.842][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:55.843][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.844][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.845][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.846][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.846][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-11-28 20:47:55.847][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:55.848][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.849][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-11-28 20:47:55.850][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:55.851][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.852][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:55.853][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.854][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-11-28 20:47:55.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.856][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:55.857][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:55.858][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:55.859][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:55.860][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.860][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:55.861][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:55.862][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:55.863][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:55.864][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:55.865][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.866][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[2024-11-28 20:47:55.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.890][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[2024-11-28 20:47:55.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.898][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[2024-11-28 20:47:55.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.910][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.DEBUG[2024-11-28 20:47:55.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.914][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[2024-11-28 20:47:55.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.918][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[2024-11-28 20:47:55.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.935][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[2024-11-28 20:47:55.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:55.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:55.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:55.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:55.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:55.940][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-11-28 20:47:55.941][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-11-28 20:47:55.942][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-11-28 20:47:55.944][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-11-28 20:47:55.945][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-11-28 20:47:55.946][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-28 20:47:55.948][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-11-28 20:47:55.949][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-11-28 20:47:55.950][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-11-28 20:47:55.951][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-28 20:47:55.953][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-28 20:47:55.954][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-11-28 20:47:55.955][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-11-28 20:47:55.957][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-11-28 20:47:55.958][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-11-28 20:47:55.959][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-28 20:47:55.960][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-11-28 20:47:55.962][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-11-28 20:47:55.963][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-11-28 20:47:55.964][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-11-28 20:47:55.965][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-11-28 20:47:55.967][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-11-28 20:47:55.968][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-11-28 20:47:55.969][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-11-28 20:47:55.971][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-11-28 20:47:55.972][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-11-28 20:47:55.973][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-11-28 20:47:55.974][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-11-28 20:47:55.976][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-11-28 20:47:55.977][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-11-28 20:47:55.978][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-11-28 20:47:55.980][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-11-28 20:47:55.981][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-11-28 20:47:55.982][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-11-28 20:47:55.983][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-11-28 20:47:55.985][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-11-28 20:47:55.986][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-11-28 20:47:55.987][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-11-28 20:47:55.988][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-11-28 20:47:55.990][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-11-28 20:47:55.991][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-11-28 20:47:55.992][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-11-28 20:47:55.994][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-11-28 20:47:55.995][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-11-28 20:47:55.996][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-11-28 20:47:55.997][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-11-28 20:47:55.999][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-11-28 20:47:56.000][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-11-28 20:47:56.001][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-11-28 20:47:56.003][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-11-28 20:47:56.004][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-11-28 20:47:56.005][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-11-28 20:47:56.006][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-11-28 20:47:56.008][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-11-28 20:47:56.009][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-11-28 20:47:56.010][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-11-28 20:47:56.011][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-11-28 20:47:56.013][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-11-28 20:47:56.014][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-11-28 20:47:56.015][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-11-28 20:47:56.017][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-11-28 20:47:56.018][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-11-28 20:47:56.023][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-11-28 20:47:56.025][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-11-28 20:47:56.026][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-11-28 20:47:56.028][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-11-28 20:47:56.029][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-11-28 20:47:56.030][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-11-28 20:47:56.031][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-11-28 20:47:56.033][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-11-28 20:47:56.034][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-11-28 20:47:56.035][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-11-28 20:47:56.036][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-11-28 20:47:56.038][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-11-28 20:47:56.039][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-11-28 20:47:56.040][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-11-28 20:47:56.041][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-11-28 20:47:56.043][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-11-28 20:47:56.044][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-11-28 20:47:56.045][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-11-28 20:47:56.047][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-11-28 20:47:56.048][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-11-28 20:47:56.049][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-11-28 20:47:56.050][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-11-28 20:47:56.052][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2024-11-28 20:47:56.053][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-11-28 20:47:56.054][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.055][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.101][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[2024-11-28 20:47:56.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-11-28 20:47:56.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.158][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-11-28 20:47:56.159][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:56.161][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:56.162][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-11-28 20:47:56.163][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:56.163][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-11-28 20:47:56.164][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:56.165][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-11-28 20:47:56.166][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:56.167][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-11-28 20:47:56.168][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-11-28 20:47:56.169][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-11-28 20:47:56.170][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:56.171][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-11-28 20:47:56.172][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-11-28 20:47:56.173][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-11-28 20:47:56.174][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-11-28 20:47:56.174][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-11-28 20:47:56.174][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-11-28 20:47:56.174][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-11-28 20:47:56.175][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-11-28 20:47:56.176][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:56.177][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:56.178][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-11-28 20:47:56.179][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-11-28 20:47:56.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-11-28 20:47:56.180][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-11-28 20:47:56.181][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-28 20:47:56.181][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-11-28 20:47:56.182][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:56.183][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:56.184][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-11-28 20:47:56.185][self$setPropertyValue]
biodb.DEBUG[2024-11-28 20:47:56.186][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-11-28 20:47:56.187][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-11-28 20:47:56.189][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-11-28 20:47:56.190][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-11-28 20:47:56.192][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-11-28 20:47:56.195][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:56.195][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-11-28 20:47:56.197][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:56.198][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:56.199][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:56.200][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:56.205][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-11-28 20:47:56.206][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-11-28 20:47:56.207][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-11-28 20:47:56.207][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-11-28 20:47:56.208][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-11-28 20:47:56.209][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-11-28 20:47:56.210][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-11-28 20:47:56.211][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-11-28 20:47:56.212][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-11-28 20:47:56.213][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:56.214][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:56.215][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:56.216][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-11-28 20:47:56.218][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-11-28 20:47:56.218][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-11-28 20:47:56.220][biodb::testThat]
biodb.INFO [2024-11-28 20:47:56.221][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-11-28 20:47:56.221][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-11-28 20:47:56.222][biodb::testThat]
biodb.DEBUG[2024-11-28 20:47:56.224][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-28 20:47:56.225][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-28 20:47:56.226][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-11-28 20:47:56.229][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:56.230][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:56.232][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:56.233][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:56.234][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:56.235][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:56.236][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:56.237][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:56.238][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:56.238][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-28 20:47:56.239][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-11-28 20:47:56.241][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-11-28 20:47:56.242][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-28 20:47:56.243][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:56.245][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-28 20:47:56.246][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-11-28 20:47:56.247][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-28 20:47:56.249][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-11-28 20:47:56.250][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-28 20:47:56.251][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-28 20:47:56.252][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-28 20:47:56.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:56.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-28 20:47:56.266][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.269][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.273][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.274][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.276][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.277][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.281][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.282][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.284][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.285][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.289][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.289][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.291][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.292][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.297][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.299][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.308][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.309][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.311][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.315][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.316][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.318][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.319][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.323][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.324][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.325][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.327][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.330][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.331][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.333][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.334][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.338][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.339][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.340][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.342][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.345][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.346][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.348][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:56.354][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:56.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.356][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:56.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:56.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.361][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.364][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.368][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.369][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.371][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.376][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.377][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.379][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.380][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.383][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.384][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.386][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.387][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:56.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:56.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.403][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:56.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:56.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.408][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:56.409][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.411][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.412][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:56.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.427][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.431][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.434][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.438][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.441][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.445][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.470][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.474][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.478][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.481][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.485][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.488][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.492][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.500][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.504][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.508][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.511][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.515][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.519][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.522][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.526][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:56.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:56.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:56.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:56.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:56.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:56.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.551][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.555][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.558][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.580][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.583][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.587][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.594][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.599][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.603][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.606][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.610][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:56.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:56.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.614][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:56.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:56.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.617][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:56.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:56.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.621][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:56.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.635][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:56.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.658][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:56.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:56.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.661][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:56.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:56.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.668][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:56.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:56.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:56.699][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-11-28 20:47:56.700][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.704][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.707][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:56.714][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:56.715][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-28 20:47:56.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:56.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:56.725][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-11-28 20:47:56.726][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-11-28 20:47:56.728][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:56.729][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-11-28 20:47:56.731][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-11-28 20:47:56.732][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-11-28 20:47:56.733][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-11-28 20:47:56.734][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-11-28 20:47:56.736][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-11-28 20:47:56.737][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-11-28 20:47:56.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:56.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:56.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:56.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:56.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:56.745][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:56.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-11-28 20:47:56.749][ef$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.750][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.752][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.757][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.758][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.759][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.761][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:56.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.764][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.765][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.767][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.768][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.772][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.773][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.775][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.776][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.782][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.791][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.792][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.794][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.800][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.801][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.802][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.803][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:56.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.807][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.808][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.810][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.811][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:56.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.815][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.815][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.817][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.818][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.822][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.823][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.825][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.826][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.829][ef$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.830][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.832][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.837][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:56.838][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:56.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.840][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:56.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:56.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.844][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.845][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.847][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:56.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.852][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.855][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:56.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.859][ef$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.860][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.862][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:56.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:56.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.867][ef$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.868][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.870][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.871][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.874][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:56.875][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:56.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.877][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.878][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:56.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:56.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.882][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:56.883][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.889][ef$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.890][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-11-28 20:47:56.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:56.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:56.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.905][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.908][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.912][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-11-28 20:47:56.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.916][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.919][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.923][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-11-28 20:47:56.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-11-28 20:47:56.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-11-28 20:47:56.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.948][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.952][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-11-28 20:47:56.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.959][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.963][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-11-28 20:47:56.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.970][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.973][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.977][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-11-28 20:47:56.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.985][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.989][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.993][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:56.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:56.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:56.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:56.997][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:56.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:56.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:57.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:57.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.004][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-11-28 20:47:57.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-11-28 20:47:57.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:57.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:57.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:57.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:57.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-11-28 20:47:57.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-11-28 20:47:57.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.030][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:57.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:57.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.033][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:57.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:57.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.037][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:57.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-11-28 20:47:57.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:57.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:57.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:57.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:57.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:57.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-11-28 20:47:57.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.062][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:57.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:57.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.066][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:57.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:57.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.070][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:57.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-11-28 20:47:57.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.073][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:57.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:57.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.081][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:57.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:57.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.085][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:57.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-11-28 20:47:57.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:57.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:57.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.093][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:57.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:57.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.096][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-11-28 20:47:57.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-11-28 20:47:57.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.100][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:57.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.114][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-11-28 20:47:57.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-11-28 20:47:57.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-11-28 20:47:57.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-11-28 20:47:57.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.137][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:57.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:57.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.141][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:57.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:57.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:57.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:57.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.148][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:57.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-11-28 20:47:57.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:57.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:57.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:57.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:57.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:57.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:57.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:57.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:57.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:57.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:57.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-11-28 20:47:57.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-11-28 20:47:57.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:57.178][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-11-28 20:47:57.188][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.192][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.195][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.199][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:57.202][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:57.203][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:57.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:57.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:57.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:57.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:57.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:57.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:57.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:57.217][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-28 20:47:57.218][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-28 20:47:57.219][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-11-28 20:47:57.221][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:57.222][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:57.223][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:57.224][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:57.225][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:57.226][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:57.227][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:57.228][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:57.229][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:57.230][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-28 20:47:57.231][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-28 20:47:57.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.236][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.240][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.243][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.247][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.251][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.254][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:57.258][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:57.259][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-28 20:47:57.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:57.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:57.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:57.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:57.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:57.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:57.272][FUN] Functions in observer BiodbConfig: [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[2024-11-28 20:47:57.273][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.277][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.281][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.284][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.288][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.292][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.295][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:57.299][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-28 20:47:57.300][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-28 20:47:57.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:57.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:57.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:57.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:57.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:57.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:57.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-11-28 20:47:57.313][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-11-28 20:47:57.314][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-28 20:47:57.315][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-11-28 20:47:57.317][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:57.318][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:57.319][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-11-28 20:47:57.321][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-11-28 20:47:57.322][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-11-28 20:47:57.323][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-11-28 20:47:57.324][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-11-28 20:47:57.325][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-11-28 20:47:57.326][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-11-28 20:47:57.326][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-11-28 20:47:57.327][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-11-28 20:47:57.329][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.333][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.336][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.340][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.344][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.347][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.351][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:57.354][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-11-28 20:47:57.355][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-11-28 20:47:57.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:57.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:57.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:57.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:57.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:57.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:57.369][FUN] Functions in observer BiodbConfig: [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[2024-11-28 20:47:57.370][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.374][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.378][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.381][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.385][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.389][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-11-28 20:47:57.392][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-11-28 20:47:57.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-11-28 20:47:57.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-11-28 20:47:57.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-11-28 20:47:57.396][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-11-28 20:47:57.397][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-11-28 20:47:57.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-11-28 20:47:57.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:57.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:57.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:57.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:57.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:57.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-11-28 20:47:57.412][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-11-28 20:47:57.413][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-11-28 20:47:57.414][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-11-28 20:47:57.415][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-11-28 20:47:57.416][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-11-28 20:47:57.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-11-28 20:47:57.417][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-11-28 20:47:57.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-11-28 20:47:57.419][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-11-28 20:47:57.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
>
> proc.time()
user system elapsed
8.147 0.328 33.096