Pierrick Roger
| Snapshot Date: 2024-09-26 13:40 -0400 (Thu, 26 Sep 2024) |
| git_url: https://git.bioconductor.org/packages/biodbHmdb |
| git_branch: devel |
| git_last_commit: c3d59a4 |
| git_last_commit_date: 2024-04-30 11:39:05 -0400 (Tue, 30 Apr 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-09-27 12:24 -0400 (Fri, 27 Sep 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4451 |
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4417 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4456 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4489 |
| kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4436 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4435 |
| 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 203/2262 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.11.0 (landing page) Pierrick Roger
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | ||||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the biodbHmdb package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbHmdb |
| Version: 1.11.0 |
| 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_1.11.0.tar.gz |
| StartedAt: 2024-09-26 22:48:20 -0400 (Thu, 26 Sep 2024) |
| EndedAt: 2024-09-26 22:49:23 -0400 (Thu, 26 Sep 2024) |
| EllapsedTime: 63.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 2 |
##############################################################################
##############################################################################
###
### 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_1.11.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* 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 ‘1.11.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... WARNING
Found the following significant warnings:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
EntryMaker.hpp:22:14: warning: ‘bool EntryMaker::closed’ [-Wreorder]
EntryMaker.cpp:5:1: warning: when initialized here [-Wreorder]
See ‘/media/volume/teran2_disk/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
‘/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################
* installing to library ‘/media/volume/teran2_disk/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'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -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'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -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'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -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'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -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'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/Rcpp/include' -I'/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/testthat/include' -I/usr/local/include -fpic -g -O2 -Wall -DR_NO_REMAP -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 /media/volume/teran2_disk/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 4.4.1 (2024-06-14) -- "Race for Your Life"
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 [2024-09-26 22:48:45.620][biodb::testContext]
biodb.INFO [2024-09-26 22:48:45.622][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:48:45.623][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-09-26 22:48:45.623][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:48:45.624][biodb::testContext]
biodb.INFO [2024-09-26 22:48:45.625][biodb::testThat]
biodb.INFO [2024-09-26 22:48:45.626][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2024-09-26 22:48:45.626][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:45.627][biodb::testThat]
biodb.INFO [2024-09-26 22:48:45.693][biodb::testContext]
biodb.INFO [2024-09-26 22:48:45.694][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:48:45.695][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-09-26 22:48:45.695][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:48:45.696][biodb::testContext]
biodb.INFO [2024-09-26 22:48:45.701][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-09-26 22:48:45.703][self$loadDefinitions] Load definitions from file "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-09-26 22:48:45.713][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:48:45.714][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-26 22:48:45.714][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-26 22:48:45.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.717][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-26 22:48:45.730][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-26 22:48:45.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.732][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[2024-09-26 22:48:45.733][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-26 22:48:45.734][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-26 22:48:45.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.736][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-26 22:48:45.737][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-26 22:48:45.738][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-26 22:48:45.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.740][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-26 22:48:45.741][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-26 22:48:45.742][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-26 22:48:45.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.744][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-26 22:48:45.745][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-26 22:48:45.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.747][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-26 22:48:45.748][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-26 22:48:45.749][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-26 22:48:45.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.751][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-26 22:48:45.752][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-26 22:48:45.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.754][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[2024-09-26 22:48:45.755][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-26 22:48:45.755][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-26 22:48:45.756][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-26 22:48:45.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.759][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-26 22:48:45.759][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-26 22:48:45.760][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-26 22:48:45.761][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-26 22:48:45.761][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-26 22:48:45.762][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-26 22:48:45.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.764][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-26 22:48:45.765][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-26 22:48:45.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.768][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-26 22:48:45.768][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-26 22:48:45.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.770][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[2024-09-26 22:48:45.771][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-26 22:48:45.771][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-26 22:48:45.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.774][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-26 22:48:45.777][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-26 22:48:45.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.781][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-26 22:48:45.781][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-26 22:48:45.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.784][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-26 22:48:45.785][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-26 22:48:45.789][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2024-09-26 22:48:45.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.791][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-26 22:48:45.792][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-26 22:48:45.793][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-26 22:48:45.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.798][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-26 22:48:45.825][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.837][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-09-26 22:48:45.838][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.839][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:48:45.839][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.847][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.848][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.849][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.850][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-26 22:48:45.850][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:48:45.851][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.852][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-26 22:48:45.853][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:48:45.853][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.854][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.855][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:48:45.855][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-26 22:48:45.855][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-26 22:48:45.855][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-26 22:48:45.855][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-26 22:48:45.856][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:48:45.856][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.857][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.858][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:48:45.859][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.859][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.860][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.861][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.861][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:48:45.862][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:48:45.863][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.864][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.865][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-26 22:48:45.866][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.867][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-26 22:48:45.867][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.868][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:48:45.869][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.870][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.871][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.871][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.872][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-26 22:48:45.873][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:48:45.874][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.875][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-26 22:48:45.875][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:48:45.876][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.877][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.878][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:48:45.878][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-26 22:48:45.878][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-26 22:48:45.878][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-26 22:48:45.878][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-26 22:48:45.879][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:48:45.879][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.880][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.881][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:48:45.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.882][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.883][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.884][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.885][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:48:45.885][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:48:45.886][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.887][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.888][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-26 22:48:45.889][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.890][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-09-26 22:48:45.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.891][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:48:45.892][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.893][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.893][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.894][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.895][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-26 22:48:45.896][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:48:45.897][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.897][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-26 22:48:45.898][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:48:45.899][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.900][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.900][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.901][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:48:45.902][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.902][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.903][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:48:45.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.905][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.906][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.907][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:48:45.907][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:48:45.908][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.909][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.910][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-26 22:48:45.911][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.912][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-26 22:48:45.913][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.913][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:48:45.914][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.915][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.916][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.916][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.917][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-26 22:48:45.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:48:45.919][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.919][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-26 22:48:45.920][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:48:45.921][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.921][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:45.922][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.923][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:48:45.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.925][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:48:45.925][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:45.926][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:45.927][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:48:45.927][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:48:45.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:48:45.929][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:45.930][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:45.932][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:48:45.933][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:45.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:45.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:45.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:45.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:45.991][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-26 22:48:45.994][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-26 22:48:45.995][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-26 22:48:45.996][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-26 22:48:45.997][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-26 22:48:45.998][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-26 22:48:45.999][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-26 22:48:46.000][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-26 22:48:46.001][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-26 22:48:46.002][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-26 22:48:46.003][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-26 22:48:46.004][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-26 22:48:46.005][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-26 22:48:46.006][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-26 22:48:46.007][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-26 22:48:46.008][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-26 22:48:46.009][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-26 22:48:46.010][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-26 22:48:46.011][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-26 22:48:46.012][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-26 22:48:46.013][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-26 22:48:46.014][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-26 22:48:46.015][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-26 22:48:46.016][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-26 22:48:46.017][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-26 22:48:46.018][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-26 22:48:46.019][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-26 22:48:46.020][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-26 22:48:46.021][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-26 22:48:46.022][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-26 22:48:46.022][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-26 22:48:46.023][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-26 22:48:46.024][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-26 22:48:46.025][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-26 22:48:46.026][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-26 22:48:46.027][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-26 22:48:46.028][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-26 22:48:46.029][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-26 22:48:46.030][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-26 22:48:46.031][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-26 22:48:46.032][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-26 22:48:46.033][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-26 22:48:46.034][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-26 22:48:46.035][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-26 22:48:46.036][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-26 22:48:46.037][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-26 22:48:46.038][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-26 22:48:46.039][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-26 22:48:46.040][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-26 22:48:46.041][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-26 22:48:46.042][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-26 22:48:46.043][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-26 22:48:46.044][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-26 22:48:46.045][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-26 22:48:46.046][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-26 22:48:46.047][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-26 22:48:46.048][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-26 22:48:46.049][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-26 22:48:46.050][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-26 22:48:46.050][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-26 22:48:46.051][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-26 22:48:46.052][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-26 22:48:46.053][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-26 22:48:46.054][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-26 22:48:46.055][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-26 22:48:46.056][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-26 22:48:46.057][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-26 22:48:46.058][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-26 22:48:46.059][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-26 22:48:46.060][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-26 22:48:46.061][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-26 22:48:46.062][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-26 22:48:46.063][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-26 22:48:46.064][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-26 22:48:46.065][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-26 22:48:46.066][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-26 22:48:46.067][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-26 22:48:46.068][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-26 22:48:46.069][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-26 22:48:46.070][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-26 22:48:46.071][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-26 22:48:46.072][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-26 22:48:46.073][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-26 22:48:46.077][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-26 22:48:46.078][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-09-26 22:48:46.080][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:48:46.081][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.082][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.090][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[2024-09-26 22:48:46.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.117][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[2024-09-26 22:48:46.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.134][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[2024-09-26 22:48:46.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.150][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[2024-09-26 22:48:46.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:48:46.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:48:46.164][biodb$loadDefinitions] Load definitions from file "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-09-26 22:48:46.172][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:48:46.174][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:46.174][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-09-26 22:48:46.175][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:46.176][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:48:46.177][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:46.177][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-09-26 22:48:46.178][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:46.179][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:48:46.179][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-09-26 22:48:46.180][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:48:46.181][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:46.181][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-09-26 22:48:46.182][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-09-26 22:48:46.183][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-09-26 22:48:46.184][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-26 22:48:46.184][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:48:46.184][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-09-26 22:48:46.184][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-09-26 22:48:46.185][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-26 22:48:46.186][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:46.186][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:46.187][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:48:46.188][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:48:46.188][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:48:46.189][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:48:46.189][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-26 22:48:46.189][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-09-26 22:48:46.190][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:48:46.191][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:48:46.191][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-26 22:48:46.192][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:48:46.196][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-09-26 22:48:46.198][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-26 22:48:46.199][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-26 22:48:46.200][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-26 22:48:46.201][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-26 22:48:46.218][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:48:46.219][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-09-26 22:48:46.222][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:48:46.258][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:48:46.261][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:48:46.262][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:48:46.263][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-09-26 22:48:46.264][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-09-26 22:48:46.264][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-26 22:48:46.264][self$setPropertyValue] Setting property "urls" to "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-09-26 22:48:46.265][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:48:46.266][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:48:46.266][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-09-26 22:48:46.267][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-09-26 22:48:46.268][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:48:46.281][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:48:46.282][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:48:46.283][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:48:46.284][private$addConnectorRules] Create new rule for URL "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:48:46.285][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:48:46.285][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-09-26 22:48:46.291][biodb::testThat]
biodb.INFO [2024-09-26 22:48:46.291][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2024-09-26 22:48:46.292][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:46.293][biodb::testThat]
biodb.TRACE[2024-09-26 22:48:46.297][loadFileContents] Loaded 1 files from cache: [1]: "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-09-26 22:48:46.298][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-26 22:48:46.301][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-26 22:48:46.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:48:46.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:46.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:46.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:46.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:46.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:46.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:48:46.320][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.322][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.335][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.335][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.337][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.355][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.358][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.359][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.360][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.361][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.364][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.365][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.366][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.367][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.379][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.383][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.384][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.385][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.389][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.389][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.391][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.392][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.395][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.395][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.397][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.398][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.401][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.401][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.403][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.406][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.407][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.408][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.409][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.412][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.413][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.414][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:46.418][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:46.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.420][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:46.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.423][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.425][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.429][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.430][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.431][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.435][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.435][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.437][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.440][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.441][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.442][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.443][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:46.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:46.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.448][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.449][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:46.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:46.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.452][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:48:46.452][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.454][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.455][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:48:46.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.494][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.497][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.499][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.502][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.505][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.507][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:46.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.526][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.529][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.531][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:46.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.534][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.537][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.539][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:46.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.542][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.545][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.547][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.550][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.553][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.555][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.558][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.563][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:46.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:46.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:46.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:46.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:46.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:46.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.589][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.592][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.611][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.614][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.616][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.619][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.622][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.624][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.627][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:46.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:46.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:46.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:46.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.632][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:46.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:46.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.635][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:48:46.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.640][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.646][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:48:46.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:46.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.679][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.682][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.688][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:46.707][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-09-26 22:48:46.709][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-26 22:48:46.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-26 22:48:46.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.711][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-26 22:48:46.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-26 22:48:46.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.714][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-26 22:48:46.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-26 22:48:46.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.717][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-26 22:48:46.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-26 22:48:46.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.736][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.759][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.762][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.765][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:46.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.786][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.787][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.788][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:46.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:46.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.797][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.800][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.803][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.806][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.806][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.808][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.808][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:46.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.824][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.825][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.826][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:46.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.834][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.837][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.840][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.843][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.843][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.845][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.845][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:46.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.861][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.863][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:46.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.871][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.878][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.881][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.884][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.885][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.886][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.887][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.903][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.904][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.905][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:46.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:46.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.913][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.916][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.918][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.921][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.922][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.923][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.924][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:46.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:46.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.931][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.934][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.937][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.939][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.941][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.942][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:46.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:46.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.950][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.952][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.955][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.958][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.958][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.960][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.960][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:46.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.981][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.981][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.983][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:46.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.991][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.997][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:46.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:46.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:46.999][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.000][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.001][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.002][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.010][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.012][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.015][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.018][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.019][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.020][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.021][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.028][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.031][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.033][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.036][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.037][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.038][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.039][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.046][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.052][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.054][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.055][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.056][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.079][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.096][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.097][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.098][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.106][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.109][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.112][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.115][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.115][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.117][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.117][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.125][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.125][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.127][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.130][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.131][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.132][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.135][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.136][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.137][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.140][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.141][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.142][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.145][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.146][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.147][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.150][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.151][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.152][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.155][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.156][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.157][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.160][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.161][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.162][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.165][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.166][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.167][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.175][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:47.176][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:47.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.177][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.180][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.182][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.185][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.186][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.188][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.191][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.191][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.193][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.196][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.197][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.198][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.201][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.202][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.203][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.206][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.207][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.208][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.211][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.212][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.213][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.216][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.217][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.218][ef$get] fields variable is a list.
biodb.INFO [2024-09-26 22:48:47.223][biodb::testThat]
biodb.INFO [2024-09-26 22:48:47.224][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-09-26 22:48:47.225][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:47.225][biodb::testThat]
biodb.DEBUG[2024-09-26 22:48:47.236][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-09-26 22:48:47.240][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-26 22:48:47.245][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.246][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-26 22:48:47.247][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-09-26 22:48:47.248][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-26 22:48:47.251][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-09-26 22:48:47.252][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-26 22:48:47.269][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-26 22:48:47.270][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-26 22:48:47.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:48:47.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:48:47.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:48:47.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:48:47.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:48:47.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:48:47.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:48:47.285][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.286][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.287][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.291][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.292][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.293][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.294][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.297][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.298][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.299][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.300][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.303][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.304][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.305][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.306][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.309][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.311][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.315][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.316][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.317][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.321][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.323][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.323][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.326][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.327][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.328][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.329][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.332][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.333][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.334][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.335][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.337][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.338][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.339][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.340][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.343][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:47.344][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:47.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.345][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.346][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:47.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:47.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.349][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.349][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.351][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.354][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.355][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.356][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.360][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.362][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.365][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.366][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.367][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.375][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.376][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.377][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.378][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.382][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.383][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.384][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.387][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:48:47.388][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.389][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.390][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:48:47.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.401][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.406][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:48:47.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.409][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.411][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.414][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:48:47.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:48:47.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:48:47.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.433][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.438][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:48:47.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.443][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:48:47.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.449][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.454][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:48:47.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.457][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.459][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.462][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:47.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:47.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:47.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:47.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:48:47.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:48:47.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:48:47.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:48:47.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.496][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.498][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:48:47.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:48:47.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.517][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.520][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.522][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:48:47.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.525][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.528][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.533][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.538][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:48:47.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:48:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.541][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:48:47.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.551][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:48:47.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:48:47.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.558][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:47.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.575][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:47.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:47.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.581][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:47.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:48:47.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:48:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:48:47.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.600][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-09-26 22:48:47.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-09-26 22:48:47.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-09-26 22:48:47.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-09-26 22:48:47.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-09-26 22:48:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-09-26 22:48:47.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-09-26 22:48:47.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-26 22:48:47.614][biodb::testThat]
biodb.INFO [2024-09-26 22:48:47.614][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2024-09-26 22:48:47.615][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:47.616][biodb::testThat]
biodb.TRACE[2024-09-26 22:48:47.618][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.620][ef$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.621][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-09-26 22:48:47.638][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.644][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.648][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-09-26 22:48:47.649][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-09-26 22:48:47.650][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-26 22:48:47.651][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-26 22:48:47.652][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.653][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.658][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:48:47.659][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.660][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:48:47.661][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:48:47.662][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:48:47.662][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:48:47.663][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:48:47.664][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-26 22:48:47.664][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-26 22:48:47.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.677][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:48:47.677][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-26 22:48:47.678][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-09-26 22:48:47.686][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.686][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.688][ef$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.689][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-09-26 22:48:47.696][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.699][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.702][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.706][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[2024-09-26 22:48:47.747][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-26 22:48:47.748][private$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[2024-09-26 22:48:47.749][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-09-26 22:48:47.759][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.760][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.761][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:48:47.762][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.763][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:48:47.773][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:48:47.774][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:48:47.775][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:48:47.775][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:48:47.776][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-26 22:48:47.777][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-26 22:48:47.778][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.781][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.784][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.786][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:48:47.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:48:47.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.789][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:48:47.790][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-26 22:48:47.790][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-09-26 22:48:47.798][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.799][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.800][ef$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.801][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-09-26 22:48:47.809][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.811][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.814][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.818][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-09-26 22:48:47.819][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-09-26 22:48:47.820][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-09-26 22:48:47.821][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-09-26 22:48:47.822][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.823][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.824][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:48:47.825][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.825][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:48:47.826][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:48:47.827][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:48:47.828][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:48:47.828][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:48:47.829][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-26 22:48:47.830][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-26 22:48:47.835][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.838][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.841][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.844][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:48:47.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.846][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:48:47.847][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-26 22:48:47.848][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-09-26 22:48:47.858][biodb::testThat]
biodb.INFO [2024-09-26 22:48:47.858][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2024-09-26 22:48:47.859][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:47.860][biodb::testThat]
biodb.TRACE[2024-09-26 22:48:47.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.870][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.882][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-09-26 22:48:47.882][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-26 22:48:47.883][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-09-26 22:48:47.884][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.885][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.886][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:48:47.887][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:48:47.888][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:48:47.889][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:48:47.890][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:48:47.890][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:48:47.891][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:48:47.892][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-26 22:48:47.892][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-26 22:48:47.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.896][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:48:47.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:48:47.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:48:47.904][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:48:47.905][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-09-26 22:48:47.914][biodb::testThat]
biodb.INFO [2024-09-26 22:48:47.915][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2024-09-26 22:48:47.916][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:47.916][biodb::testThat]
biodb.TRACE[2024-09-26 22:48:47.935][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.938][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.941][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-26 22:48:47.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-26 22:48:47.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.943][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-26 22:48:47.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-26 22:48:47.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.975][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.978][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-09-26 22:48:47.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.981][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-09-26 22:48:47.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-09-26 22:48:47.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:48:47.983][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-09-26 22:48:47.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-09-26 22:48:47.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:48:47.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-26 22:48:47.990][biodb::testThat]
biodb.INFO [2024-09-26 22:48:47.991][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-09-26 22:48:47.991][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:47.992][biodb::testThat]
biodb.INFO [2024-09-26 22:48:47.997][biodb::testThat]
biodb.INFO [2024-09-26 22:48:47.998][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-09-26 22:48:47.999][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:47.999][biodb::testThat]
biodb.INFO [2024-09-26 22:48:48.008][biodb::testThat]
biodb.INFO [2024-09-26 22:48:48.009][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2024-09-26 22:48:48.010][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:48:48.010][biodb::testThat]
biodb.DEBUG[2024-09-26 22:48:48.013][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-09-26 22:49:12.203][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-09-26 22:49:12.364][biodb::testThat]
biodb.INFO [2024-09-26 22:49:12.365][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2024-09-26 22:49:12.365][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:12.366][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:14.166][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-09-26 22:49:14.243][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:14.244][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:14.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.259][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.259][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:14.260][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:14.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.261][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.262][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:14.263][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:14.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.264][ef$get] fields variable is a list.
biodb.INFO [2024-09-26 22:49:14.265][biodb::testThat]
biodb.INFO [2024-09-26 22:49:14.266][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2024-09-26 22:49:14.267][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:14.267][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:14.269][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-09-26 22:49:14.303][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2024-09-26 22:49:14.304][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2024-09-26 22:49:14.305][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2024-09-26 22:49:14.306][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2024-09-26 22:49:14.307][private$doDownload] Downloading HMDB metabolite database at "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2024-09-26 22:49:14.308][cch$addFilesToCache] Moving files to cache [1]: "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2024-09-26 22:49:14.309][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-09-26 22:49:14.311][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2024-09-26 22:49:14.312][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-09-26 22:49:14.313][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2024-09-26 22:49:14.314][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker39a51457b2f382marker".
biodb.TRACE[2024-09-26 22:49:14.315][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2024-09-26 22:49:14.316][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-09-26 22:49:14.317][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-09-26 22:49:14.318][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2024-09-26 22:49:14.318][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2024-09-26 22:49:14.319][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2024-09-26 22:49:14.320][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2024-09-26 22:49:14.334][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2024-09-26 22:49:14.335][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2024-09-26 22:49:14.336][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2024-09-26 22:49:14.337][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2024-09-26 22:49:14.342][self$addFilesToCache] Moving files to cache [2]: "/media/volume/teran2_disk/biocbuild/.cache/R/biodb/tmp/HMDB0000001.xml, /media/volume/teran2_disk/biocbuild/.cache/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2024-09-26 22:49:14.348][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-09-26 22:49:14.349][self$addFilesToCache] Done adding files.
biodb.DEBUG[2024-09-26 22:49:14.350][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2024-09-26 22:49:14.351][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker39a5143408d65marker".
biodb.TRACE[2024-09-26 22:49:14.352][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2024-09-26 22:49:14.353][self$addFilesToCache] Done adding files.
biodb.TRACE[2024-09-26 22:49:14.364][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-09-26 22:49:14.365][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-09-26 22:49:14.366][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-09-26 22:49:14.367][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-26 22:49:14.368][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.369][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-26 22:49:14.370][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-26 22:49:14.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:14.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:49:14.379][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.382][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:14.401][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-09-26 22:49:14.401][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-09-26 22:49:14.412][biodb::testThat]
biodb.INFO [2024-09-26 22:49:14.413][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-09-26 22:49:14.414][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:14.414][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:14.448][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-09-26 22:49:14.449][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-09-26 22:49:14.450][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-26 22:49:14.451][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.452][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-26 22:49:14.454][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-09-26 22:49:14.454][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-09-26 22:49:14.455][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-09-26 22:49:14.456][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-26 22:49:14.457][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.458][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-26 22:49:14.459][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-26 22:49:14.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:14.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:49:14.468][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.471][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:14.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:14.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:14.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:14.491][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-09-26 22:49:14.491][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-09-26 22:49:14.492][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-09-26 22:49:14.501][biodb::testThat]
biodb.INFO [2024-09-26 22:49:14.501][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2024-09-26 22:49:14.502][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:14.503][biodb::testThat]
biodb.INFO [2024-09-26 22:49:14.518][biodb::testThat]
biodb.INFO [2024-09-26 22:49:14.518][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2024-09-26 22:49:14.519][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:14.520][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:14.521][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.527][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.528][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:49:14.529][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.530][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:49:14.531][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:49:14.532][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:49:14.532][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:49:14.533][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-09-26 22:49:14.538][biodb::testThat]
biodb.INFO [2024-09-26 22:49:14.539][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2024-09-26 22:49:14.539][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:14.540][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:14.542][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.543][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.544][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:49:14.545][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:14.545][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:49:14.546][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:49:14.547][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:49:14.548][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:49:14.548][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-09-26 22:49:14.554][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:14.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:14.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.556][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.557][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:14.558][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:14.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.559][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:14.560][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:14.560][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:14.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:14.562][ef$get] fields variable is a list.
biodb.INFO [2024-09-26 22:49:14.562][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-26 22:49:14.563][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-09-26 22:49:14.569][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-09-26 22:49:14.569][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-26 22:49:14.570][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.571][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.572][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.573][FUN] Functions in observer BiodbConfig: [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 [2024-09-26 22:49:14.575][biodb::testContext]
biodb.INFO [2024-09-26 22:49:14.576][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:49:14.577][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-09-26 22:49:14.577][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:49:14.578][biodb::testContext]
biodb.INFO [2024-09-26 22:49:14.581][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-09-26 22:49:14.582][self$loadDefinitions] Load definitions from file "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-09-26 22:49:14.585][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:49:14.585][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-26 22:49:14.586][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-26 22:49:14.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.589][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-26 22:49:14.589][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-26 22:49:14.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.592][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-26 22:49:14.593][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-26 22:49:14.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.595][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-26 22:49:14.596][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-26 22:49:14.597][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-26 22:49:14.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.599][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-26 22:49:14.600][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-26 22:49:14.601][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-26 22:49:14.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.608][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-26 22:49:14.608][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-26 22:49:14.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.611][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-26 22:49:14.612][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-26 22:49:14.612][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-26 22:49:14.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.615][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-26 22:49:14.616][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-26 22:49:14.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.618][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-26 22:49:14.619][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-26 22:49:14.620][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-26 22:49:14.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.622][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-26 22:49:14.623][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-26 22:49:14.623][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-26 22:49:14.624][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-26 22:49:14.625][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-26 22:49:14.625][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-26 22:49:14.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.628][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-26 22:49:14.629][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-26 22:49:14.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.631][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-26 22:49:14.632][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-26 22:49:14.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.634][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-26 22:49:14.635][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-26 22:49:14.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.637][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-26 22:49:14.638][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-26 22:49:14.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.641][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-26 22:49:14.641][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-26 22:49:14.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.644][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-26 22:49:14.644][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-26 22:49:14.648][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2024-09-26 22:49:14.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.650][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-26 22:49:14.651][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-26 22:49:14.652][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-26 22:49:14.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.654][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-26 22:49:14.655][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.656][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-09-26 22:49:14.657][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.658][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:14.658][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.659][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.660][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.660][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.661][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-26 22:49:14.662][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:14.662][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.663][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-26 22:49:14.664][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:14.664][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.665][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.666][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:49:14.666][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-26 22:49:14.666][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-26 22:49:14.666][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-26 22:49:14.666][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-26 22:49:14.666][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:14.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.668][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:14.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.670][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.670][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.671][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.672][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:14.672][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:14.673][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.673][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.674][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-26 22:49:14.676][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.676][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-26 22:49:14.677][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.678][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:14.678][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.683][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.684][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.685][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.685][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-26 22:49:14.686][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:14.687][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.688][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-26 22:49:14.688][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:14.689][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.690][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.690][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:49:14.690][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-26 22:49:14.690][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-26 22:49:14.690][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-26 22:49:14.690][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-26 22:49:14.691][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:14.692][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.692][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.693][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:14.694][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.695][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.696][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.696][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:14.697][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:14.697][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.698][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.699][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-26 22:49:14.700][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.701][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-09-26 22:49:14.702][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:14.703][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.704][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.704][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.705][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.706][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-26 22:49:14.706][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:14.707][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.708][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-26 22:49:14.708][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:14.709][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.710][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.710][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.711][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:14.712][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.713][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:14.714][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.714][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.715][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.715][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.716][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:14.717][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:14.717][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.718][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.719][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-26 22:49:14.720][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.721][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-26 22:49:14.721][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.722][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:14.723][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.723][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.724][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.725][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.725][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-26 22:49:14.726][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:14.727][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.727][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-26 22:49:14.728][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:14.729][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.729][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.730][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.731][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:14.731][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.732][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.733][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:14.733][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.734][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.734][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.735][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.736][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:14.736][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:14.737][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.738][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.739][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:49:14.739][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.743][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[2024-09-26 22:49:14.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.746][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.DEBUG[2024-09-26 22:49:14.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.749][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[2024-09-26 22:49:14.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.765][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[2024-09-26 22:49:14.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.771][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[2024-09-26 22:49:14.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.774][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[2024-09-26 22:49:14.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.786][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[2024-09-26 22:49:14.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.795][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-26 22:49:14.796][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-26 22:49:14.797][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-26 22:49:14.798][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-26 22:49:14.799][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-26 22:49:14.800][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-26 22:49:14.801][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-26 22:49:14.802][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-26 22:49:14.803][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-26 22:49:14.804][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-26 22:49:14.805][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-26 22:49:14.806][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-26 22:49:14.807][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-26 22:49:14.808][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-26 22:49:14.809][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-26 22:49:14.810][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-26 22:49:14.811][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-26 22:49:14.811][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-26 22:49:14.812][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-26 22:49:14.813][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-26 22:49:14.814][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-26 22:49:14.815][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-26 22:49:14.816][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-26 22:49:14.817][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-26 22:49:14.818][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-26 22:49:14.819][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-26 22:49:14.820][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-26 22:49:14.821][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-26 22:49:14.822][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-26 22:49:14.823][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-26 22:49:14.828][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-26 22:49:14.829][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-26 22:49:14.830][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-26 22:49:14.831][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-26 22:49:14.832][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-26 22:49:14.833][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-26 22:49:14.834][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-26 22:49:14.835][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-26 22:49:14.836][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-26 22:49:14.837][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-26 22:49:14.838][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-26 22:49:14.839][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-26 22:49:14.840][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-26 22:49:14.841][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-26 22:49:14.842][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-26 22:49:14.843][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-26 22:49:14.844][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-26 22:49:14.845][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-26 22:49:14.846][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-26 22:49:14.847][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-26 22:49:14.848][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-26 22:49:14.849][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-26 22:49:14.850][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-26 22:49:14.851][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-26 22:49:14.852][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-26 22:49:14.852][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-26 22:49:14.853][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-26 22:49:14.854][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-26 22:49:14.855][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-26 22:49:14.856][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-26 22:49:14.857][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-26 22:49:14.858][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-26 22:49:14.859][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-26 22:49:14.860][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-26 22:49:14.861][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-26 22:49:14.862][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-26 22:49:14.863][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-26 22:49:14.864][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-26 22:49:14.865][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-26 22:49:14.866][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-26 22:49:14.867][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-26 22:49:14.868][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-26 22:49:14.869][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-26 22:49:14.870][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-26 22:49:14.871][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-26 22:49:14.872][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-26 22:49:14.872][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-26 22:49:14.873][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-26 22:49:14.874][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-26 22:49:14.875][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-26 22:49:14.876][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-26 22:49:14.877][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-26 22:49:14.878][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-26 22:49:14.879][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-26 22:49:14.880][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-09-26 22:49:14.881][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:49:14.882][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.883][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.914][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[2024-09-26 22:49:14.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.918][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[2024-09-26 22:49:14.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.922][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[2024-09-26 22:49:14.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.926][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[2024-09-26 22:49:14.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:14.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:14.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:14.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:14.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:14.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:14.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:14.960][biodb$loadDefinitions] Load definitions from file "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-09-26 22:49:14.961][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:14.963][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.963][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.964][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.965][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:14.965][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.966][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-09-26 22:49:14.967][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.967][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.972][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-09-26 22:49:14.973][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:14.974][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.975][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-09-26 22:49:14.975][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-09-26 22:49:14.976][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-09-26 22:49:14.977][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:14.978][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:49:14.978][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-09-26 22:49:14.978][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-09-26 22:49:14.978][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-26 22:49:14.979][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.980][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.980][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:14.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:14.981][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:14.982][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:14.983][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-26 22:49:14.983][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-09-26 22:49:14.984][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:14.984][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:14.985][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:14.986][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:14.986][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-09-26 22:49:14.987][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-26 22:49:14.989][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-26 22:49:14.990][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-26 22:49:14.991][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-26 22:49:14.993][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:14.994][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-09-26 22:49:14.995][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:14.996][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:49:14.996][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:14.997][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:14.998][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-09-26 22:49:14.999][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-09-26 22:49:14.999][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-26 22:49:14.999][self$setPropertyValue] Setting property "urls" to "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-09-26 22:49:15.000][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:15.001][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:15.001][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-09-26 22:49:15.002][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-09-26 22:49:15.003][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:15.004][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:49:15.005][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.005][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.006][private$addConnectorRules] Create new rule for URL "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:49:15.007][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.008][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-09-26 22:49:15.009][biodb::testThat]
biodb.INFO [2024-09-26 22:49:15.009][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-09-26 22:49:15.010][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:15.011][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:15.013][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.015][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.016][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:49:15.016][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.017][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:49:15.018][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:49:15.019][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:49:15.019][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:49:15.020][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:49:15.022][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-09-26 22:49:15.026][biodb::testThat]
biodb.INFO [2024-09-26 22:49:15.027][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-09-26 22:49:15.027][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:15.028][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:15.029][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-09-26 22:49:15.030][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-26 22:49:15.031][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.032][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-26 22:49:15.033][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-09-26 22:49:15.034][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-26 22:49:15.035][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-09-26 22:49:15.036][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-26 22:49:15.037][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-26 22:49:15.038][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-26 22:49:15.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:15.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:49:15.053][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.054][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.055][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.059][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.060][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.061][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.062][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.065][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.066][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.067][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.071][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.071][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.073][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.074][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.078][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.082][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.083][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.084][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.088][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.088][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.090][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.091][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.093][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.094][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.095][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.096][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.099][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.100][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.101][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.102][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.105][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.105][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.107][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.108][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.110][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:15.111][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:15.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.112][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:15.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:15.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.116][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:15.117][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:15.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.118][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:15.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:15.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.122][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.122][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.128][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.132][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.132][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.134][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.137][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.138][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.139][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.143][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:15.144][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:15.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.145][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.146][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:15.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:15.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.149][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:15.149][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:15.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.151][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.151][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:15.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:15.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.154][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:49:15.155][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.156][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.157][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:49:15.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.168][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.171][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.173][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.176][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.179][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.181][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.205][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.207][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.213][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.215][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.218][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.224][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:15.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:15.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.231][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:15.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:15.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.234][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:15.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:15.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.237][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:15.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:15.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.239][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:15.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:15.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.242][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:15.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:15.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:15.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:15.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:15.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:15.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:15.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.260][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.263][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.266][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.287][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.290][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.292][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.295][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.298][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.300][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.303][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.306][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:15.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:15.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.308][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:15.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.311][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:15.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:15.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.314][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:49:15.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.324][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:49:15.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.328][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.339][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.342][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:15.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:15.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.349][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:15.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:15.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.354][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:15.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:15.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:15.373][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-09-26 22:49:15.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-09-26 22:49:15.387][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-26 22:49:15.388][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-09-26 22:49:15.388][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-09-26 22:49:15.389][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-26 22:49:15.390][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.391][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.392][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-09-26 22:49:15.395][biodb::testContext]
biodb.INFO [2024-09-26 22:49:15.396][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:49:15.396][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-09-26 22:49:15.397][biodb::testContext] ********************************************************************************
biodb.INFO [2024-09-26 22:49:15.398][biodb::testContext]
biodb.INFO [2024-09-26 22:49:15.401][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-09-26 22:49:15.402][self$loadDefinitions] Load definitions from file "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2024-09-26 22:49:15.404][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:49:15.405][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-09-26 22:49:15.406][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-09-26 22:49:15.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.408][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-09-26 22:49:15.409][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-09-26 22:49:15.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.412][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-09-26 22:49:15.412][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-09-26 22:49:15.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.415][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-09-26 22:49:15.415][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-09-26 22:49:15.416][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-09-26 22:49:15.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.419][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-09-26 22:49:15.424][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-09-26 22:49:15.425][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-09-26 22:49:15.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.427][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-09-26 22:49:15.428][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-09-26 22:49:15.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.430][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-09-26 22:49:15.431][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-09-26 22:49:15.432][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-09-26 22:49:15.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.434][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-09-26 22:49:15.435][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-09-26 22:49:15.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.437][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-09-26 22:49:15.438][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-09-26 22:49:15.439][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-09-26 22:49:15.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.441][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-09-26 22:49:15.442][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-09-26 22:49:15.443][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-09-26 22:49:15.443][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-09-26 22:49:15.444][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-09-26 22:49:15.445][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-09-26 22:49:15.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.447][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-09-26 22:49:15.448][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-09-26 22:49:15.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.450][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-09-26 22:49:15.451][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-09-26 22:49:15.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.453][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-09-26 22:49:15.454][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-09-26 22:49:15.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.456][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-09-26 22:49:15.457][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-09-26 22:49:15.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.460][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-09-26 22:49:15.460][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-09-26 22:49:15.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.463][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-09-26 22:49:15.463][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-09-26 22:49:15.467][self$set] Set key svn.binary.path to "/usr/bin/svn".
biodb.DEBUG[2024-09-26 22:49:15.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.469][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-09-26 22:49:15.470][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-09-26 22:49:15.471][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-09-26 22:49:15.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.473][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-09-26 22:49:15.474][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.475][self$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[2024-09-26 22:49:15.476][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.476][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:15.477][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.478][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.479][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.479][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.480][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-26 22:49:15.481][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:15.481][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.482][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-09-26 22:49:15.483][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:15.483][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.484][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.485][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:49:15.485][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-26 22:49:15.485][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-26 22:49:15.485][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-26 22:49:15.485][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-26 22:49:15.485][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:15.486][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.486][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.487][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:15.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.490][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.490][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:15.491][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:15.491][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.492][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.497][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-09-26 22:49:15.498][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.499][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-09-26 22:49:15.500][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:15.501][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.502][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.503][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.503][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.504][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-26 22:49:15.505][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:15.505][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.506][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-09-26 22:49:15.507][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:15.507][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.508][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.509][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:49:15.509][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-09-26 22:49:15.509][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-09-26 22:49:15.509][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-09-26 22:49:15.509][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-09-26 22:49:15.509][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:15.510][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.511][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.511][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:15.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.514][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.515][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:15.515][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:15.516][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.516][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.517][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-09-26 22:49:15.518][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.519][self$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[2024-09-26 22:49:15.520][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.520][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:15.521][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.522][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.522][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.523][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.524][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-09-26 22:49:15.524][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:15.525][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.526][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-09-26 22:49:15.526][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:15.527][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.528][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.528][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.529][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:15.530][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.530][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.531][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:15.531][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.533][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.533][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.534][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:15.535][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:15.535][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.536][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.537][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-09-26 22:49:15.538][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.538][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-09-26 22:49:15.539][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.540][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:15.540][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.541][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.542][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.542][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.543][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-09-26 22:49:15.544][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:15.544][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.545][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-09-26 22:49:15.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:15.546][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.547][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.548][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.548][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-09-26 22:49:15.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.550][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.550][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:15.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.552][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.553][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.553][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:15.554][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:15.555][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.555][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.556][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:49:15.557][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.577][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[2024-09-26 22:49:15.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.586][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[2024-09-26 22:49:15.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.603][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[2024-09-26 22:49:15.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.612][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-09-26 22:49:15.613][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-09-26 22:49:15.614][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-09-26 22:49:15.615][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-09-26 22:49:15.616][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-09-26 22:49:15.617][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-26 22:49:15.618][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-09-26 22:49:15.619][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-09-26 22:49:15.620][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-09-26 22:49:15.621][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-26 22:49:15.622][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-26 22:49:15.623][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-09-26 22:49:15.624][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-09-26 22:49:15.625][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-09-26 22:49:15.626][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-09-26 22:49:15.627][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-26 22:49:15.628][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-09-26 22:49:15.629][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-09-26 22:49:15.629][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-09-26 22:49:15.630][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-09-26 22:49:15.635][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-09-26 22:49:15.637][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-09-26 22:49:15.638][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-09-26 22:49:15.639][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-09-26 22:49:15.640][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-09-26 22:49:15.641][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-09-26 22:49:15.643][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-09-26 22:49:15.644][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-09-26 22:49:15.645][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-09-26 22:49:15.646][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-09-26 22:49:15.647][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-09-26 22:49:15.647][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-09-26 22:49:15.648][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-09-26 22:49:15.649][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-09-26 22:49:15.650][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-09-26 22:49:15.651][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-09-26 22:49:15.652][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-09-26 22:49:15.653][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-09-26 22:49:15.654][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-09-26 22:49:15.655][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-09-26 22:49:15.656][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-09-26 22:49:15.657][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-09-26 22:49:15.658][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-09-26 22:49:15.659][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-09-26 22:49:15.660][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-09-26 22:49:15.661][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-09-26 22:49:15.662][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-09-26 22:49:15.663][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-09-26 22:49:15.664][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-09-26 22:49:15.665][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-09-26 22:49:15.666][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-09-26 22:49:15.667][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-09-26 22:49:15.668][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-09-26 22:49:15.669][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-09-26 22:49:15.669][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-09-26 22:49:15.670][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-09-26 22:49:15.671][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-09-26 22:49:15.672][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-09-26 22:49:15.673][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-09-26 22:49:15.674][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-09-26 22:49:15.675][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-09-26 22:49:15.676][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-09-26 22:49:15.677][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-09-26 22:49:15.678][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-09-26 22:49:15.679][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-09-26 22:49:15.680][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-09-26 22:49:15.681][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-09-26 22:49:15.682][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-09-26 22:49:15.683][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-09-26 22:49:15.684][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-09-26 22:49:15.685][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-09-26 22:49:15.686][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-09-26 22:49:15.687][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-09-26 22:49:15.688][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-09-26 22:49:15.689][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-09-26 22:49:15.689][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-09-26 22:49:15.690][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-09-26 22:49:15.691][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-09-26 22:49:15.692][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-09-26 22:49:15.693][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-09-26 22:49:15.694][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-09-26 22:49:15.695][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-09-26 22:49:15.696][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-09-26 22:49:15.697][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-09-26 22:49:15.698][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-09-26 22:49:15.699][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-09-26 22:49:15.700][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.701][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.702][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[2024-09-26 22:49:15.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.727][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[2024-09-26 22:49:15.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.760][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[2024-09-26 22:49:15.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-09-26 22:49:15.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:15.782][biodb$loadDefinitions] Load definitions from file "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-09-26 22:49:15.783][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:15.785][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.786][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.786][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.787][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-09-26 22:49:15.788][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.788][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-09-26 22:49:15.789][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.790][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.790][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-09-26 22:49:15.791][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-09-26 22:49:15.792][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.792][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-09-26 22:49:15.793][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-09-26 22:49:15.794][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-09-26 22:49:15.795][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-09-26 22:49:15.795][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-09-26 22:49:15.795][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-09-26 22:49:15.795][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-09-26 22:49:15.796][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-09-26 22:49:15.797][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.797][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.798][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-09-26 22:49:15.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-09-26 22:49:15.799][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-09-26 22:49:15.800][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-09-26 22:49:15.800][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-26 22:49:15.800][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-09-26 22:49:15.801][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:15.802][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:15.802][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-09-26 22:49:15.803][self$setPropertyValue]
biodb.DEBUG[2024-09-26 22:49:15.804][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-09-26 22:49:15.805][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-09-26 22:49:15.806][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-09-26 22:49:15.807][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-09-26 22:49:15.808][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-09-26 22:49:15.810][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:15.811][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-09-26 22:49:15.812][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:15.813][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:49:15.814][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.814][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.815][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-09-26 22:49:15.816][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-09-26 22:49:15.817][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-09-26 22:49:15.817][self$setPropertyValue] Setting property "urls" to "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-09-26 22:49:15.817][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-09-26 22:49:15.818][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-09-26 22:49:15.818][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-09-26 22:49:15.819][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-09-26 22:49:15.820][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-09-26 22:49:15.821][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:49:15.822][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.822][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.823][private$addConnectorRules] Create new rule for URL "/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-09-26 22:49:15.824][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-09-26 22:49:15.825][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-09-26 22:49:15.826][biodb::testThat]
biodb.INFO [2024-09-26 22:49:15.826][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2024-09-26 22:49:15.827][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-09-26 22:49:15.828][biodb::testThat]
biodb.DEBUG[2024-09-26 22:49:15.829][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-26 22:49:15.830][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-09-26 22:49:15.830][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-09-26 22:49:15.833][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.834][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.835][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:49:15.836][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.836][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:49:15.837][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:49:15.838][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:49:15.839][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:49:15.839][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:49:15.840][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-26 22:49:15.841][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-09-26 22:49:15.842][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-09-26 22:49:15.843][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-26 22:49:15.848][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:15.849][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-26 22:49:15.851][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-09-26 22:49:15.851][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-26 22:49:15.853][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-09-26 22:49:15.854][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-26 22:49:15.855][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-26 22:49:15.855][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-26 22:49:15.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:15.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:15.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:15.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:15.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:15.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:15.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:49:15.866][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.867][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.868][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.872][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.873][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.874][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.875][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:15.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.878][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.879][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.880][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.881][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.884][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.884][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.886][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.886][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.890][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.891][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:15.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.895][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.896][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.897][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:15.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.900][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.901][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.902][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.903][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:15.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.906][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.907][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.908][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.909][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:15.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.912][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.912][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.914][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:15.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.917][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.918][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.924][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.925][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:15.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.928][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:15.929][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:15.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.930][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.931][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:15.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:15.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:15.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:15.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.935][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:15.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:15.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.939][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.940][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.941][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:15.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.945][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.946][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.947][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:15.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.950][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.951][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.952][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:15.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:15.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.956][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:15.957][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:15.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.958][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.959][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:15.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:15.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.961][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:15.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:15.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.963][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.964][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:15.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:15.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.967][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:49:15.968][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.969][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.970][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:49:15.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:15.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:15.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:15.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.981][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.984][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.986][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:15.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:15.989][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:15.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:15.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.000][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.003][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.022][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.025][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.028][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.030][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.033][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.036][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.038][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.044][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.046][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.049][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.052][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.057][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.084][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.086][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.100][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.105][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.108][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.110][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.113][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.116][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.118][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.121][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.129][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.132][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:49:16.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.147][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:49:16.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.165][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.167][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.173][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.192][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-09-26 22:49:16.192][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.195][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.198][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.203][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:49:16.204][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-26 22:49:16.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:16.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:16.212][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-09-26 22:49:16.213][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-09-26 22:49:16.214][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:16.215][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-09-26 22:49:16.221][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-09-26 22:49:16.222][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-09-26 22:49:16.223][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-09-26 22:49:16.224][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-09-26 22:49:16.225][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-09-26 22:49:16.226][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-09-26 22:49:16.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:16.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:49:16.236][ef$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.237][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.239][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.242][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.243][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.244][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.245][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.248][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.249][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.250][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.251][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.254][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.255][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.256][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.257][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.260][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.260][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.262][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.265][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.266][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.267][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.271][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.272][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.273][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.274][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.276][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.277][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.279][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.279][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.282][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.283][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.284][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.285][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.288][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.289][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.290][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.291][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.294][ef$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.299][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.300][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.305][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.305][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.307][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.311][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.312][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.316][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.317][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.318][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.322][ef$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.323][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.324][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.327][ef$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.328][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.329][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.330][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.333][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.334][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.335][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.339][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:49:16.339][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.341][ef$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.341][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-09-26 22:49:16.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.352][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.355][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.358][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-09-26 22:49:16.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.360][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.363][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.366][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-09-26 22:49:16.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-09-26 22:49:16.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-09-26 22:49:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.390][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.392][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.395][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-09-26 22:49:16.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.398][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.401][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-09-26 22:49:16.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.406][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.409][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.411][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-09-26 22:49:16.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.414][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.417][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.419][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.422][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-09-26 22:49:16.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-09-26 22:49:16.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.435][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-09-26 22:49:16.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-09-26 22:49:16.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.451][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.453][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.456][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-09-26 22:49:16.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-09-26 22:49:16.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.475][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.478][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.480][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-09-26 22:49:16.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.483][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.486][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.488][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-09-26 22:49:16.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.491][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.496][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-09-26 22:49:16.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-09-26 22:49:16.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.499][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:49:16.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.510][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-09-26 22:49:16.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-09-26 22:49:16.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-09-26 22:49:16.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-09-26 22:49:16.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.532][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.535][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.540][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-09-26 22:49:16.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-09-26 22:49:16.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-09-26 22:49:16.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.559][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-09-26 22:49:16.560][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.562][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.565][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.568][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.570][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:49:16.571][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:49:16.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:16.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-09-26 22:49:16.582][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-26 22:49:16.583][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-09-26 22:49:16.583][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-09-26 22:49:16.585][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:16.586][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:16.587][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:49:16.588][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:16.588][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:49:16.593][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:49:16.594][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:49:16.595][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:49:16.596][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:49:16.597][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-26 22:49:16.598][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-26 22:49:16.599][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.602][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.604][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.607][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.610][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.613][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.615][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.618][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:49:16.619][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-26 22:49:16.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:16.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:49:16.626][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.629][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.632][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.635][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.637][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.640][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.643][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.645][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-09-26 22:49:16.646][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-26 22:49:16.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:16.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.653][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[2024-09-26 22:49:16.656][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-09-26 22:49:16.657][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-09-26 22:49:16.657][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-09-26 22:49:16.659][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:16.659][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:16.660][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-09-26 22:49:16.661][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-09-26 22:49:16.662][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-09-26 22:49:16.663][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-09-26 22:49:16.668][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-09-26 22:49:16.669][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-09-26 22:49:16.670][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-09-26 22:49:16.670][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-09-26 22:49:16.671][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-09-26 22:49:16.673][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.676][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.678][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.681][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.684][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.687][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.689][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.692][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-09-26 22:49:16.693][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-09-26 22:49:16.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:16.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-09-26 22:49:16.700][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.706][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.709][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.714][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-09-26 22:49:16.717][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-09-26 22:49:16.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-09-26 22:49:16.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-09-26 22:49:16.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-09-26 22:49:16.719][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-09-26 22:49:16.720][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-09-26 22:49:16.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-09-26 22:49:16.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.727][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.INFO [2024-09-26 22:49:16.731][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-09-26 22:49:16.732][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-09-26 22:49:16.733][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-09-26 22:49:16.734][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-09-26 22:49:16.734][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-09-26 22:49:16.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-09-26 22:49:16.736][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-09-26 22:49:16.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-09-26 22:49:16.737][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-09-26 22:49:16.737][FUN] Functions in observer 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
6.289 0.257 32.620