| Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-01-29 16:33:37 -0000 (Sun, 29 Jan 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4021 |
| 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 | ||||
|
To the developers/maintainers of the biodbHmdb package: - Please 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 How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 180/2162 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbHmdb 1.5.0 (landing page) Pierrick Roger
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | WARNINGS | |||||||||
| Package: biodbHmdb |
| Version: 1.5.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings biodbHmdb_1.5.0.tar.gz |
| StartedAt: 2023-01-28 18:26:16 -0000 (Sat, 28 Jan 2023) |
| EndedAt: 2023-01-28 18:27:31 -0000 (Sat, 28 Jan 2023) |
| EllapsedTime: 75.2 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 1 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings biodbHmdb_1.5.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2023-01-14 r83615)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.1 LTS
* using session charset: UTF-8
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.5.0’
* 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 ... OK
* used C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
* 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 R 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 ... WARNING
Error in library(biodbHmdb, lib.loc = "/home/biocbuild/bbs-3.17-bioc/R/library") :
there is no package called ‘biodbHmdb’
Execution halted
It looks like this package has a loading problem when not on .libPaths:
see the messages for details.
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘biodbHmdb.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 WARNING
See
‘/home/biocbuild/bbs-3.17-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.
biodbHmdb.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL biodbHmdb ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’ * installing *source* package ‘biodbHmdb’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’ g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Tag.cpp -o Tag.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c extractXmlEntries.cpp -o extractXmlEntries.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-100-tag.cpp -o test-100-tag.o g++ -std=gnu++14 -I"/home/biocbuild/bbs-3.17-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/site-library/testthat/include' -I/usr/local/include -fPIC -g -O2 -Wall -c test-runner.cpp -o test-runner.o g++ -std=gnu++14 -shared -L/home/biocbuild/bbs-3.17-bioc/R/lib -L/usr/local/lib -o biodbHmdb.so RcppExports.o Tag.o extractXmlEntries.o test-100-tag.o test-runner.o -L/home/biocbuild/bbs-3.17-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.17-bioc/R/site-library/00LOCK-biodbHmdb/00new/biodbHmdb/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbHmdb)
biodbHmdb.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
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 [2023-01-28 18:27:03.216][biodb::testContext]
biodb.INFO [2023-01-28 18:27:03.219][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:03.220][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-01-28 18:27:03.221][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:03.238][biodb::testContext]
biodb.INFO [2023-01-28 18:27:03.241][biodb::testThat]
biodb.INFO [2023-01-28 18:27:03.242][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2023-01-28 18:27:03.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:03.244][biodb::testThat]
biodb.INFO [2023-01-28 18:27:03.374][biodb::testContext]
biodb.INFO [2023-01-28 18:27:03.376][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:03.377][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-01-28 18:27:03.378][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:03.380][biodb::testContext]
biodb.INFO [2023-01-28 18:27:03.401][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-01-28 18:27:03.404][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-01-28 18:27:03.414][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:03.415][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-01-28 18:27:03.417][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-01-28 18:27:03.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.422][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-01-28 18:27:03.447][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-01-28 18:27:03.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.450][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[2023-01-28 18:27:03.452][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-01-28 18:27:03.453][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-01-28 18:27:03.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.458][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-01-28 18:27:03.459][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-01-28 18:27:03.460][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-01-28 18:27:03.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.465][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-01-28 18:27:03.467][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-01-28 18:27:03.468][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-01-28 18:27:03.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.473][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-01-28 18:27:03.474][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-01-28 18:27:03.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.479][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-01-28 18:27:03.480][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-01-28 18:27:03.482][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-01-28 18:27:03.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.486][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-01-28 18:27:03.488][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-01-28 18:27:03.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.493][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-01-28 18:27:03.494][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-01-28 18:27:03.495][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-01-28 18:27:03.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.500][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-01-28 18:27:03.501][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-01-28 18:27:03.503][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-01-28 18:27:03.504][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-01-28 18:27:03.505][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-01-28 18:27:03.507][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-01-28 18:27:03.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.512][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-01-28 18:27:03.513][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-01-28 18:27:03.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.518][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-01-28 18:27:03.519][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-01-28 18:27:03.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.534][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-01-28 18:27:03.536][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-01-28 18:27:03.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.541][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-01-28 18:27:03.542][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-01-28 18:27:03.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.547][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-01-28 18:27:03.549][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-01-28 18:27:03.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.554][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-01-28 18:27:03.555][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-01-28 18:27:03.570][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-01-28 18:27:03.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.573][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.DEBUG[2023-01-28 18:27:03.575][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-01-28 18:27:03.576][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-01-28 18:27:03.577][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-01-28 18:27:03.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.586][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-01-28 18:27:03.633][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.655][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-01-28 18:27:03.657][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.658][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:03.660][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.661][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.662][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.664][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.665][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-01-28 18:27:03.666][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:03.668][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.669][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-01-28 18:27:03.670][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:03.672][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.673][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.675][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:03.675][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-01-28 18:27:03.675][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-01-28 18:27:03.675][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-01-28 18:27:03.675][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-01-28 18:27:03.676][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:03.677][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.679][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.680][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:03.681][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.683][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.684][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.685][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.687][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:03.688][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:03.689][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.691][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.692][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-01-28 18:27:03.695][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.696][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-01-28 18:27:03.698][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.699][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:03.700][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.702][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.703][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.705][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.706][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-01-28 18:27:03.707][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:03.709][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.710][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-01-28 18:27:03.712][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:03.713][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.714][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.716][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:03.716][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-01-28 18:27:03.716][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-01-28 18:27:03.716][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-01-28 18:27:03.716][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-01-28 18:27:03.717][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:03.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.720][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.721][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:03.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.724][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.725][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.727][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.728][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:03.729][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:03.731][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.732][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.734][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-01-28 18:27:03.736][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.738][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-01-28 18:27:03.739][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.740][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:03.742][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.743][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.745][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.747][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-01-28 18:27:03.749][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:03.750][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.752][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-01-28 18:27:03.753][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:03.754][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.756][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.757][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.759][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:03.760][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.761][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.763][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:03.764][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.765][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.767][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.768][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.769][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:03.771][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:03.772][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.773][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.775][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-01-28 18:27:03.778][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.779][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-01-28 18:27:03.780][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:03.783][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.785][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.786][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.796][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.797][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-01-28 18:27:03.799][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:03.800][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.801][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-01-28 18:27:03.803][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:03.804][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.806][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:03.807][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.808][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:03.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.812][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:03.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:03.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:03.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:03.818][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.819][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:03.820][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:03.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:03.823][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:03.829][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:03.830][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.918][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[2023-01-28 18:27:03.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.938][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[2023-01-28 18:27:03.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:03.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:03.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:03.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:03.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:03.947][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-01-28 18:27:03.954][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-01-28 18:27:03.956][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-01-28 18:27:03.959][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-01-28 18:27:03.961][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-01-28 18:27:03.963][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-01-28 18:27:03.966][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-01-28 18:27:03.968][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-01-28 18:27:03.970][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-01-28 18:27:03.972][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-01-28 18:27:03.974][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-01-28 18:27:03.976][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-01-28 18:27:03.978][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-01-28 18:27:03.980][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-01-28 18:27:03.982][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-01-28 18:27:03.984][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-01-28 18:27:03.986][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-01-28 18:27:03.989][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-01-28 18:27:03.991][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-01-28 18:27:03.993][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-01-28 18:27:03.995][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-01-28 18:27:03.997][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-01-28 18:27:03.999][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-01-28 18:27:04.001][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-01-28 18:27:04.003][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-01-28 18:27:04.005][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-01-28 18:27:04.007][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-01-28 18:27:04.009][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-01-28 18:27:04.012][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-01-28 18:27:04.014][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-01-28 18:27:04.016][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-01-28 18:27:04.018][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-01-28 18:27:04.020][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-01-28 18:27:04.022][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-01-28 18:27:04.024][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-01-28 18:27:04.026][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-01-28 18:27:04.028][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-01-28 18:27:04.030][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-01-28 18:27:04.032][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-01-28 18:27:04.034][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-01-28 18:27:04.036][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-01-28 18:27:04.039][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-01-28 18:27:04.041][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-01-28 18:27:04.043][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-01-28 18:27:04.045][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-01-28 18:27:04.047][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-01-28 18:27:04.049][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-01-28 18:27:04.051][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-01-28 18:27:04.053][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-01-28 18:27:04.055][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-01-28 18:27:04.065][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-01-28 18:27:04.068][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-01-28 18:27:04.070][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-01-28 18:27:04.072][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-01-28 18:27:04.074][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-01-28 18:27:04.076][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-01-28 18:27:04.078][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-01-28 18:27:04.080][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-01-28 18:27:04.082][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-01-28 18:27:04.084][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-01-28 18:27:04.086][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-01-28 18:27:04.088][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-01-28 18:27:04.090][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-01-28 18:27:04.092][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-01-28 18:27:04.094][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-01-28 18:27:04.096][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-01-28 18:27:04.098][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-01-28 18:27:04.100][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-01-28 18:27:04.102][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-01-28 18:27:04.104][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-01-28 18:27:04.107][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-01-28 18:27:04.109][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-01-28 18:27:04.111][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-01-28 18:27:04.113][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-01-28 18:27:04.115][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-01-28 18:27:04.117][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-01-28 18:27:04.119][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-01-28 18:27:04.121][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-01-28 18:27:04.123][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-01-28 18:27:04.125][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-01-28 18:27:04.127][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-01-28 18:27:04.129][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-01-28 18:27:04.132][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-01-28 18:27:04.140][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-01-28 18:27:04.142][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-01-28 18:27:04.147][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:04.148][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.151][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:04.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:04.359][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-01-28 18:27:04.374][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:04.377][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:04.378][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-01-28 18:27:04.380][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:04.381][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:04.383][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:04.384][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-01-28 18:27:04.386][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:04.387][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:04.389][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-01-28 18:27:04.390][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:04.392][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:04.393][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-01-28 18:27:04.394][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-01-28 18:27:04.396][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-01-28 18:27:04.398][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:04.399][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:04.399][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-01-28 18:27:04.401][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-01-28 18:27:04.402][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:04.403][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:04.405][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:04.406][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:04.408][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:04.409][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:04.410][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-01-28 18:27:04.410][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-01-28 18:27:04.412][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:04.413][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:04.415][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:04.416][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:04.425][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-01-28 18:27:04.427][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-01-28 18:27:04.429][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-01-28 18:27:04.432][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-01-28 18:27:04.464][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:04.465][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-01-28 18:27:04.471][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:04.477][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:04.483][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:04.485][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:04.487][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-01-28 18:27:04.488][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-01-28 18:27:04.490][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-01-28 18:27:04.490][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-01-28 18:27:04.491][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:04.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:04.494][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-01-28 18:27:04.495][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-01-28 18:27:04.497][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:04.522][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:04.524][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:04.525][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:04.527][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:04.529][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:04.531][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-01-28 18:27:04.552][biodb::testThat]
biodb.INFO [2023-01-28 18:27:04.554][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-01-28 18:27:04.556][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:04.557][biodb::testThat]
biodb.TRACE[2023-01-28 18:27:04.564][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2023-01-28 18:27:04.571][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-01-28 18:27:04.577][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-01-28 18:27:04.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:04.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:04.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:04.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:04.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:04.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:04.606][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.TRACE[2023-01-28 18:27:04.621][ef$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:04.623][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:04.624][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.626][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:04.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:04.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.668][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:04.669][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:04.671][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.672][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.710][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:04.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:04.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.720][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:04.722][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:04.723][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.724][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.726][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:04.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:04.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:04.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:04.739][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.740][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:04.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:04.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.752][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:04.754][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:04.755][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.756][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:04.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:04.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.768][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:04.770][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:04.771][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.773][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.775][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:04.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:04.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.785][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:04.787][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:04.788][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.789][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.792][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:04.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:04.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.802][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:04.803][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:04.805][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.806][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.808][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:04.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:04.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.818][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:04.820][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:04.821][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.823][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.825][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:04.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:04.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.835][ef$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:04.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:04.838][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.840][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:04.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:04.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.851][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:04.853][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:04.862][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.864][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.866][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:04.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:04.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.877][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:04.878][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:04.880][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.881][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:04.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:04.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.894][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:04.896][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:04.898][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.899][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:04.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:04.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.912][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:04.914][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:04.915][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.917][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:04.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:04.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.928][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:04.929][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:04.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.932][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.934][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:04.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:04.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.944][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:04.945][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:04.946][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.948][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.950][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:04.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:04.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.960][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:04.961][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:04.963][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.964][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.966][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:04.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:04.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:04.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:04.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:04.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:04.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:04.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:04.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:04.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:04.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.041][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:05.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:05.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.047][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:05.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:05.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.052][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:05.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:05.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.058][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:05.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:05.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.063][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:05.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:05.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.077][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:05.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:05.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.118][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:05.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:05.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.124][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:05.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:05.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:05.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:05.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.136][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:05.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:05.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:05.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:05.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:05.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:05.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.154][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:05.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:05.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.160][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:05.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:05.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.166][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:05.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:05.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.172][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.178][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.184][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.190][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:05.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:05.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.197][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:05.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:05.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.203][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:05.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:05.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:05.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:05.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:05.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:05.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:05.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:05.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.245][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.251][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.257][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:05.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:05.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:05.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:05.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:05.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:05.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.287][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.307][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.313][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.319][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.325][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:05.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:05.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:05.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:05.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:05.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.342][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:05.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.365][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:05.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:05.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.434][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.440][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.452][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:05.498][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-01-28 18:27:05.513][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-01-28 18:27:05.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-01-28 18:27:05.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.520][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-01-28 18:27:05.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-01-28 18:27:05.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.526][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-01-28 18:27:05.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-01-28 18:27:05.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.533][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-01-28 18:27:05.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-01-28 18:27:05.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.571][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.620][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.626][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.632][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:05.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.697][ef$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.698][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.700][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.701][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:05.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:05.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.739][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.740][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.742][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.743][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:05.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.761][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.776][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.782][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.788][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.790][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.791][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.792][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.794][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:05.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.833][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.835][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:05.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.860][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.865][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.871][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.872][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.874][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.875][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.876][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:05.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.910][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.913][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.914][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:05.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:05.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.932][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.943][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.949][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.950][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.952][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.953][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:05.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:05.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.970][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:05.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:05.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:05.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:05.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:05.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:05.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:05.995][ef$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:05.996][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:05.997][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:05.999][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:06.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:06.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.016][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.021][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.027][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.033][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.034][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.036][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.037][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.038][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.072][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.075][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.076][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.094][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.100][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.106][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.112][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.113][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.115][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.116][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.118][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.134][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.141][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.154][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.156][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.157][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.159][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.160][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.177][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.183][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.188][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.194][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.195][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.197][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.205][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.207][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:06.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:06.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.228][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:06.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:06.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.234][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:06.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:06.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.240][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:06.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:06.243][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.244][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.245][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:06.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:06.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.279][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.280][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.281][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.283][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.317][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.318][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.320][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.321][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.338][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.344][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.349][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.355][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.357][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.358][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.360][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.361][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.377][ef$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:06.379][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:06.381][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.382][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.390][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.392][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.393][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.395][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.403][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.405][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.406][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.407][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:06.425][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:06.426][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.428][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.436][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:06.438][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:06.439][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.440][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.449][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.450][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.452][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.453][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.462][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.464][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.466][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.467][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.476][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.478][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:06.479][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.481][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.489][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:06.490][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:06.492][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.493][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.501][ef$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:06.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:06.504][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.505][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.513][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.515][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.516][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.518][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.526][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.527][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.529][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.530][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.538][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:06.540][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:06.541][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.542][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.555][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.562][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:06.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:06.565][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.567][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.575][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:06.576][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:06.578][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.579][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.587][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:06.589][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:06.590][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.591][ef$get] fields variable is a list.
biodb.INFO [2023-01-28 18:27:06.600][biodb::testThat]
biodb.INFO [2023-01-28 18:27:06.602][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-01-28 18:27:06.603][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:06.604][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:06.632][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-01-28 18:27:06.642][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2023-01-28 18:27:06.649][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-01-28 18:27:06.651][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-01-28 18:27:06.652][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-01-28 18:27:06.653][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-01-28 18:27:06.656][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-01-28 18:27:06.657][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-01-28 18:27:06.660][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-01-28 18:27:06.662][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-01-28 18:27:06.663][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-01-28 18:27:06.667][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker204dd34f5aa8c4marker".
biodb.TRACE[2023-01-28 18:27:06.668][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-01-28 18:27:06.670][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-01-28 18:27:06.672][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-01-28 18:27:06.674][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-01-28 18:27:06.675][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2023-01-28 18:27:06.677][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-01-28 18:27:06.678][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2023-01-28 18:27:06.681][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-01-28 18:27:06.683][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-01-28 18:27:06.684][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-01-28 18:27:06.686][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2023-01-28 18:27:06.695][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/entry_1.xml, /home/biocbuild/.cache/R/biodb/tmp/entry_2.xml".
biodb.TRACE[2023-01-28 18:27:06.696][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-01-28 18:27:06.698][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-01-28 18:27:06.699][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-01-28 18:27:06.702][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker204dd31aeda352marker".
biodb.TRACE[2023-01-28 18:27:06.703][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-01-28 18:27:06.705][self$addFilesToCache] Done adding files.
biodb.TRACE[2023-01-28 18:27:06.707][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-01-28 18:27:06.709][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-01-28 18:27:06.711][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-01-28 18:27:06.713][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-01-28 18:27:06.769][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-01-28 18:27:06.771][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-01-28 18:27:06.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:06.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:06.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:06.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:06.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:06.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:06.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-01-28 18:27:06.793][ef$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:06.795][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:06.796][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.797][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:06.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:06.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.808][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.809][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.811][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.812][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.814][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:06.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.823][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.824][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.826][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.827][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.829][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:06.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:06.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:06.850][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.852][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:06.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:06.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.863][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:06.865][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:06.866][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.868][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:06.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:06.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.879][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:06.881][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:06.882][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.884][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.886][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:06.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:06.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.895][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:06.897][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:06.898][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.899][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.901][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:06.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:06.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.911][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.912][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.913][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.915][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.917][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:06.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.926][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.928][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.929][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.931][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:06.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.942][ef$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:06.944][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:06.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.946][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.948][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:06.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:06.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.957][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.959][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.961][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:06.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.973][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.974][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.977][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:06.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.988][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.990][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.992][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:06.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:06.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:06.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.004][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.005][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.006][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.008][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.019][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.020][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.022][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.023][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.025][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.034][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:07.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:07.037][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.038][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:07.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:07.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.060][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:07.064][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.065][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.067][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.071][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:07.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.101][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:07.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:07.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.108][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:07.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:07.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.114][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:07.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:07.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.121][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:07.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:07.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.127][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:07.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:07.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.132][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:07.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:07.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:07.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:07.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:07.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:07.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:07.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:07.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:07.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:07.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:07.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:07.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:07.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:07.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.173][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:07.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:07.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.179][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:07.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:07.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.185][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:07.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:07.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.190][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:07.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:07.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:07.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:07.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:07.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:07.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:07.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.232][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.238][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.243][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.249][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:07.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:07.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:07.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:07.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.260][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:07.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:07.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:07.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:07.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:07.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:07.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:07.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:07.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.308][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:07.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:07.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.314][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:07.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:07.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.319][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:07.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:07.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:07.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:07.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:07.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:07.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:07.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:07.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.348][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.359][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:07.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:07.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.365][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:07.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:07.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.370][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:07.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:07.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.376][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:07.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:07.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.382][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:07.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:07.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.387][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:07.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:07.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.393][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:07.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.416][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:07.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:07.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.426][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.438][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.458][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:07.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:07.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.464][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:07.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:07.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.483][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:07.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:07.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:07.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:07.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:07.526][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-01-28 18:27:07.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-01-28 18:27:07.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-01-28 18:27:07.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-01-28 18:27:07.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-01-28 18:27:07.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-01-28 18:27:07.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-01-28 18:27:07.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-01-28 18:27:07.551][biodb::testThat]
biodb.INFO [2023-01-28 18:27:07.553][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-01-28 18:27:07.554][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:07.555][biodb::testThat]
biodb.TRACE[2023-01-28 18:27:07.559][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.562][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.563][ef$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:07.565][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-01-28 18:27:07.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:07.623][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-01-28 18:27:07.635][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-01-28 18:27:07.637][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-01-28 18:27:07.638][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-01-28 18:27:07.641][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:07.643][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:07.644][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:07.646][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:07.648][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:07.653][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:07.655][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:07.656][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:07.658][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:07.667][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-01-28 18:27:07.668][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-01-28 18:27:07.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:07.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:07.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:07.693][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-01-28 18:27:07.694][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-01-28 18:27:07.696][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-01-28 18:27:07.724][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.725][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.726][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.728][ef$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:07.729][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-01-28 18:27:07.750][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.755][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.761][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:07.773][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[2023-01-28 18:27:07.867][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-01-28 18:27:07.868][private$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[2023-01-28 18:27:07.870][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-01-28 18:27:07.889][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:07.892][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:07.893][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:07.895][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:07.897][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:07.922][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:07.923][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:07.924][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:07.926][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:07.927][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-01-28 18:27:07.928][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-01-28 18:27:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.936][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:07.947][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:07.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:07.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:07.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:07.952][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-01-28 18:27:07.953][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-01-28 18:27:07.954][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-01-28 18:27:07.975][biodb::testThat]
biodb.INFO [2023-01-28 18:27:07.977][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-01-28 18:27:07.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:07.979][biodb::testThat]
biodb.TRACE[2023-01-28 18:27:08.004][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:08.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:08.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:08.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:08.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:08.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:08.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:08.054][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-01-28 18:27:08.056][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-01-28 18:27:08.057][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-01-28 18:27:08.059][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:08.061][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:08.063][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:08.065][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:08.066][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:08.072][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:08.073][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:08.075][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:08.076][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:08.077][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-01-28 18:27:08.079][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-01-28 18:27:08.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.087][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:08.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:08.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:08.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:08.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:08.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:08.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:08.104][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-01-28 18:27:08.105][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-01-28 18:27:08.126][biodb::testThat]
biodb.INFO [2023-01-28 18:27:08.128][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-01-28 18:27:08.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:08.130][biodb::testThat]
biodb.TRACE[2023-01-28 18:27:08.165][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.171][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.176][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-01-28 18:27:08.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-01-28 18:27:08.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.182][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-01-28 18:27:08.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-01-28 18:27:08.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.255][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.260][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-01-28 18:27:08.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.265][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-01-28 18:27:08.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-01-28 18:27:08.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:08.271][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-01-28 18:27:08.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-01-28 18:27:08.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:08.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-01-28 18:27:08.280][biodb::testThat]
biodb.INFO [2023-01-28 18:27:08.282][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-01-28 18:27:08.283][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:08.284][biodb::testThat]
biodb.INFO [2023-01-28 18:27:08.291][biodb::testThat]
biodb.INFO [2023-01-28 18:27:08.292][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-01-28 18:27:08.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:08.295][biodb::testThat]
biodb.INFO [2023-01-28 18:27:08.302][biodb::testThat]
biodb.INFO [2023-01-28 18:27:08.303][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-01-28 18:27:08.305][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:08.306][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:08.310][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-01-28 18:27:10.635][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-01-28 18:27:11.167][biodb::testThat]
biodb.INFO [2023-01-28 18:27:11.168][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-01-28 18:27:11.170][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:11.171][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:12.915][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-01-28 18:27:13.458][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:13.459][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:13.461][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.462][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.463][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:13.465][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:13.466][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.467][ef$get] fields variable is a list.
biodb.INFO [2023-01-28 18:27:13.469][biodb::testThat]
biodb.INFO [2023-01-28 18:27:13.470][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-01-28 18:27:13.472][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:13.473][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:13.476][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-01-28 18:27:13.555][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-01-28 18:27:13.558][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.560][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-01-28 18:27:13.583][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-01-28 18:27:13.585][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-01-28 18:27:13.586][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-01-28 18:27:13.588][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-01-28 18:27:13.590][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.610][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-01-28 18:27:13.611][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-01-28 18:27:13.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:13.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:13.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:13.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:13.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:13.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:13.666][FUN] Functions in observer BiodbConfig: [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[2023-01-28 18:27:13.669][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.674][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:13.712][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-01-28 18:27:13.713][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-01-28 18:27:13.734][biodb::testThat]
biodb.INFO [2023-01-28 18:27:13.735][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-01-28 18:27:13.737][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:13.738][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:13.747][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-01-28 18:27:13.749][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-01-28 18:27:13.750][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-01-28 18:27:13.752][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.754][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-01-28 18:27:13.757][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-01-28 18:27:13.758][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-01-28 18:27:13.760][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-01-28 18:27:13.761][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-01-28 18:27:13.764][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.785][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-01-28 18:27:13.787][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-01-28 18:27:13.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:13.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:13.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:13.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:13.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:13.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:13.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-01-28 18:27:13.814][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.820][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:13.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:13.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:13.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:13.862][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-01-28 18:27:13.863][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-01-28 18:27:13.865][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-01-28 18:27:13.881][biodb::testThat]
biodb.INFO [2023-01-28 18:27:13.882][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-01-28 18:27:13.884][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:13.885][biodb::testThat]
biodb.INFO [2023-01-28 18:27:13.911][biodb::testThat]
biodb.INFO [2023-01-28 18:27:13.913][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-01-28 18:27:13.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:13.915][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:13.919][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.921][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.923][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:13.925][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.926][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:13.931][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:13.933][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:13.934][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:13.935][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-01-28 18:27:13.944][biodb::testThat]
biodb.INFO [2023-01-28 18:27:13.945][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-01-28 18:27:13.947][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:13.948][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:13.952][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.954][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.955][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:13.957][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:13.959][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:13.964][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:13.973][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:13.975][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:13.977][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-01-28 18:27:13.993][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:13.994][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:13.996][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:13.997][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:13.998][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:14.000][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:14.001][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:14.002][ef$get] fields variable is a list.
biodb.INFO [2023-01-28 18:27:14.004][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-01-28 18:27:14.005][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-01-28 18:27:14.016][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-01-28 18:27:14.018][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-01-28 18:27:14.019][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.021][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.023][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.025][FUN] Functions in observer BiodbConfig: [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 [2023-01-28 18:27:14.029][biodb::testContext]
biodb.INFO [2023-01-28 18:27:14.031][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:14.032][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-01-28 18:27:14.033][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:14.034][biodb::testContext]
biodb.INFO [2023-01-28 18:27:14.042][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-01-28 18:27:14.044][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-01-28 18:27:14.049][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:14.051][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-01-28 18:27:14.052][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-01-28 18:27:14.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.057][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-01-28 18:27:14.059][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-01-28 18:27:14.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.064][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-01-28 18:27:14.065][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-01-28 18:27:14.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.070][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-01-28 18:27:14.071][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-01-28 18:27:14.073][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-01-28 18:27:14.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.078][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-01-28 18:27:14.079][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-01-28 18:27:14.081][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-01-28 18:27:14.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.086][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-01-28 18:27:14.087][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-01-28 18:27:14.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.092][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-01-28 18:27:14.094][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-01-28 18:27:14.095][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-01-28 18:27:14.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.100][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-01-28 18:27:14.102][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-01-28 18:27:14.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.106][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-01-28 18:27:14.108][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-01-28 18:27:14.109][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-01-28 18:27:14.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.114][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-01-28 18:27:14.116][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-01-28 18:27:14.117][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-01-28 18:27:14.119][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-01-28 18:27:14.120][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-01-28 18:27:14.121][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-01-28 18:27:14.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.134][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[2023-01-28 18:27:14.135][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-01-28 18:27:14.137][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-01-28 18:27:14.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.142][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-01-28 18:27:14.143][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-01-28 18:27:14.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.148][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-01-28 18:27:14.150][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-01-28 18:27:14.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.155][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-01-28 18:27:14.156][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-01-28 18:27:14.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.161][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-01-28 18:27:14.162][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-01-28 18:27:14.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.167][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-01-28 18:27:14.169][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-01-28 18:27:14.173][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-01-28 18:27:14.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.178][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-01-28 18:27:14.180][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-01-28 18:27:14.181][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-01-28 18:27:14.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.186][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-01-28 18:27:14.189][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.190][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-01-28 18:27:14.192][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.193][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:14.194][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.196][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.197][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.198][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.200][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-01-28 18:27:14.201][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:14.203][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.204][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-01-28 18:27:14.205][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:14.207][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.208][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.209][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:14.209][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-01-28 18:27:14.209][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-01-28 18:27:14.209][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-01-28 18:27:14.209][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-01-28 18:27:14.211][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:14.212][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.214][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.215][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:14.218][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.219][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.221][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.222][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.224][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:14.225][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:14.227][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.228][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.230][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-01-28 18:27:14.233][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.235][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-01-28 18:27:14.236][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.238][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:14.239][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.241][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.242][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.244][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.245][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-01-28 18:27:14.247][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:14.249][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.250][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-01-28 18:27:14.252][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:14.253][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.255][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.256][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:14.256][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-01-28 18:27:14.256][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-01-28 18:27:14.256][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-01-28 18:27:14.256][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-01-28 18:27:14.258][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:14.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.261][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.262][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:14.264][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.265][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.267][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.268][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.270][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:14.271][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:14.273][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.274][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.276][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-01-28 18:27:14.279][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.280][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-01-28 18:27:14.282][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.283][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:14.285][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.286][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.288][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.290][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.291][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-01-28 18:27:14.293][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:14.302][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.304][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-01-28 18:27:14.306][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:14.307][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.309][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.310][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.312][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:14.313][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.316][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:14.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.321][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.322][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.326][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:14.327][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:14.329][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.330][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.332][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-01-28 18:27:14.335][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.336][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-01-28 18:27:14.338][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.339][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:14.341][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.342][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.344][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.345][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.347][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-01-28 18:27:14.349][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:14.350][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.352][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-01-28 18:27:14.353][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:14.355][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.356][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.358][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.359][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:14.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.362][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:14.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.367][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.368][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.370][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.371][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:14.373][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:14.374][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.376][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.378][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:14.379][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.414][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[2023-01-28 18:27:14.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.427][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[2023-01-28 18:27:14.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.434][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[2023-01-28 18:27:14.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.441][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[2023-01-28 18:27:14.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.503][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-01-28 18:27:14.505][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-01-28 18:27:14.507][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-01-28 18:27:14.509][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-01-28 18:27:14.511][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-01-28 18:27:14.513][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-01-28 18:27:14.515][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-01-28 18:27:14.517][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-01-28 18:27:14.519][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-01-28 18:27:14.521][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-01-28 18:27:14.523][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-01-28 18:27:14.525][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-01-28 18:27:14.528][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-01-28 18:27:14.530][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-01-28 18:27:14.532][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-01-28 18:27:14.534][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-01-28 18:27:14.536][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-01-28 18:27:14.538][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-01-28 18:27:14.540][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-01-28 18:27:14.542][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-01-28 18:27:14.544][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-01-28 18:27:14.546][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-01-28 18:27:14.548][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-01-28 18:27:14.550][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-01-28 18:27:14.552][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-01-28 18:27:14.555][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-01-28 18:27:14.557][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-01-28 18:27:14.559][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-01-28 18:27:14.561][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-01-28 18:27:14.563][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-01-28 18:27:14.565][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-01-28 18:27:14.567][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-01-28 18:27:14.569][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-01-28 18:27:14.571][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-01-28 18:27:14.573][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-01-28 18:27:14.575][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-01-28 18:27:14.577][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-01-28 18:27:14.580][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-01-28 18:27:14.582][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-01-28 18:27:14.584][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-01-28 18:27:14.586][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-01-28 18:27:14.588][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-01-28 18:27:14.590][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-01-28 18:27:14.592][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-01-28 18:27:14.595][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-01-28 18:27:14.597][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-01-28 18:27:14.599][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-01-28 18:27:14.601][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-01-28 18:27:14.603][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-01-28 18:27:14.605][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-01-28 18:27:14.607][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-01-28 18:27:14.609][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-01-28 18:27:14.611][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-01-28 18:27:14.613][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-01-28 18:27:14.615][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-01-28 18:27:14.617][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-01-28 18:27:14.619][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-01-28 18:27:14.621][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-01-28 18:27:14.623][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-01-28 18:27:14.625][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-01-28 18:27:14.636][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-01-28 18:27:14.638][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-01-28 18:27:14.640][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-01-28 18:27:14.642][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-01-28 18:27:14.644][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-01-28 18:27:14.646][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-01-28 18:27:14.648][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-01-28 18:27:14.650][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-01-28 18:27:14.652][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-01-28 18:27:14.654][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-01-28 18:27:14.656][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-01-28 18:27:14.658][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-01-28 18:27:14.660][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-01-28 18:27:14.662][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-01-28 18:27:14.665][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-01-28 18:27:14.667][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-01-28 18:27:14.669][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-01-28 18:27:14.671][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-01-28 18:27:14.673][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-01-28 18:27:14.675][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-01-28 18:27:14.677][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-01-28 18:27:14.679][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-01-28 18:27:14.681][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-01-28 18:27:14.683][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-01-28 18:27:14.685][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-01-28 18:27:14.687][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:14.688][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.691][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.719][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[2023-01-28 18:27:14.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.737][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".
biodb.DEBUG[2023-01-28 18:27:14.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.746][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[2023-01-28 18:27:14.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.764][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[2023-01-28 18:27:14.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.773][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[2023-01-28 18:27:14.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.781][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[2023-01-28 18:27:14.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:14.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:14.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:14.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:14.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:14.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:14.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:14.853][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-01-28 18:27:14.855][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:14.857][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.859][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.860][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.862][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:14.863][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.864][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-01-28 18:27:14.866][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.867][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.868][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-01-28 18:27:14.870][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:14.871][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.873][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-01-28 18:27:14.874][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-01-28 18:27:14.876][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-01-28 18:27:14.877][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:14.879][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:14.879][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-01-28 18:27:14.880][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-01-28 18:27:14.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.883][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.884][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:14.885][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:14.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:14.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:14.889][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-01-28 18:27:14.889][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-01-28 18:27:14.891][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:14.892][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:14.893][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:14.895][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:14.897][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-01-28 18:27:14.899][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-01-28 18:27:14.901][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-01-28 18:27:14.903][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-01-28 18:27:14.908][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:14.909][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-01-28 18:27:14.911][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:14.913][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:14.915][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:14.916][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:14.918][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-01-28 18:27:14.920][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-01-28 18:27:14.921][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-01-28 18:27:14.921][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-01-28 18:27:14.923][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:14.924][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:14.925][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-01-28 18:27:14.927][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-01-28 18:27:14.928][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:14.930][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:14.932][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:14.934][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:14.936][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:14.937][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:14.939][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-01-28 18:27:14.941][biodb::testThat]
biodb.INFO [2023-01-28 18:27:14.950][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-01-28 18:27:14.952][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:14.954][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:14.959][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:14.962][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:14.964][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:14.966][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:14.967][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:14.973][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:14.975][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:14.976][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:14.978][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:14.981][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-01-28 18:27:14.985][biodb::testThat]
biodb.INFO [2023-01-28 18:27:14.986][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-01-28 18:27:14.988][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:14.989][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:14.992][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-01-28 18:27:14.994][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-01-28 18:27:14.996][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:14.999][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-01-28 18:27:15.002][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-01-28 18:27:15.004][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-01-28 18:27:15.006][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-01-28 18:27:15.008][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-01-28 18:27:15.029][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-01-28 18:27:15.031][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-01-28 18:27:15.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:15.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:15.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:15.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:15.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:15.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.047][FUN] Functions in observer BiodbConfig: [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[2023-01-28 18:27:15.051][ef$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.054][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.056][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.067][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.069][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.070][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.072][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.074][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.083][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.085][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.086][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.088][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.090][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.100][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.101][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.103][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.104][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.125][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.127][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.129][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.130][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.143][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.146][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.147][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.149][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.160][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.161][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.163][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.165][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.167][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.177][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.179][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.181][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.182][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.184][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.195][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.197][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.198][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.200][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.201][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.211][ef$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:15.213][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:15.214][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.216][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.217][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:15.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:15.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.227][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:15.229][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:15.230][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.231][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:15.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:15.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.243][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.244][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.246][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.247][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.259][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.260][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.262][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.263][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.275][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.276][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.278][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.279][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.299][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:15.301][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:15.303][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.304][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.306][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:15.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:15.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.315][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:15.317][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:15.318][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.320][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.322][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:15.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:15.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.331][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:15.333][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.334][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.336][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.338][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:15.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.365][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.371][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.376][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:15.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.382][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.388][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.393][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:15.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:15.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:15.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.431][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.437][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.442][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:15.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.448][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.468][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:15.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.473][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.479][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.484][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:15.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.489][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:15.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:15.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.495][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:15.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:15.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.500][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:15.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:15.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:15.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:15.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.511][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:15.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:15.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:15.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:15.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:15.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:15.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:15.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:15.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:15.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:15.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.554][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.560][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.565][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:15.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:15.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.612][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.617][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.623][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:15.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.628][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:15.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:15.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.634][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:15.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:15.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.639][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:15.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:15.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.645][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:15.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.668][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:15.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:15.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.690][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:15.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:15.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.711][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:15.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:15.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.717][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:15.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:15.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.728][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:15.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:15.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:15.780][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-01-28 18:27:15.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:15.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:15.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:15.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:15.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-01-28 18:27:15.801][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-01-28 18:27:15.803][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-01-28 18:27:15.805][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-01-28 18:27:15.806][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-01-28 18:27:15.807][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:15.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:15.810][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:15.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:15.812][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-01-28 18:27:15.818][biodb::testContext]
biodb.INFO [2023-01-28 18:27:15.820][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:15.821][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-01-28 18:27:15.823][biodb::testContext] ********************************************************************************
biodb.INFO [2023-01-28 18:27:15.824][biodb::testContext]
biodb.INFO [2023-01-28 18:27:15.832][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-01-28 18:27:15.834][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2023-01-28 18:27:15.839][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:15.841][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-01-28 18:27:15.842][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-01-28 18:27:15.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.848][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-01-28 18:27:15.849][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-01-28 18:27:15.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.854][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-01-28 18:27:15.856][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-01-28 18:27:15.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.861][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-01-28 18:27:15.862][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-01-28 18:27:15.864][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-01-28 18:27:15.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.869][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-01-28 18:27:15.871][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-01-28 18:27:15.872][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-01-28 18:27:15.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.877][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-01-28 18:27:15.879][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-01-28 18:27:15.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.884][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-01-28 18:27:15.885][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-01-28 18:27:15.887][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-01-28 18:27:15.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.892][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-01-28 18:27:15.893][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-01-28 18:27:15.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.898][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-01-28 18:27:15.900][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-01-28 18:27:15.901][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-01-28 18:27:15.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.905][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[2023-01-28 18:27:15.906][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-01-28 18:27:15.908][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-01-28 18:27:15.909][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-01-28 18:27:15.911][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-01-28 18:27:15.912][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-01-28 18:27:15.913][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-01-28 18:27:15.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.919][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-01-28 18:27:15.920][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-01-28 18:27:15.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.934][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-01-28 18:27:15.935][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-01-28 18:27:15.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.940][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-01-28 18:27:15.942][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-01-28 18:27:15.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.946][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[2023-01-28 18:27:15.947][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-01-28 18:27:15.948][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-01-28 18:27:15.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.953][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-01-28 18:27:15.955][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-01-28 18:27:15.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.958][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[2023-01-28 18:27:15.960][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-01-28 18:27:15.961][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-01-28 18:27:15.965][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-01-28 18:27:15.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.971][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-01-28 18:27:15.972][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-01-28 18:27:15.974][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-01-28 18:27:15.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:15.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:15.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:15.979][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-01-28 18:27:15.981][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:15.983][self$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[2023-01-28 18:27:15.984][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:15.986][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:15.987][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:15.988][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:15.990][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:15.991][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:15.992][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-01-28 18:27:15.994][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:15.995][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:15.997][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-01-28 18:27:15.998][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:15.999][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.001][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.002][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:16.002][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-01-28 18:27:16.002][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-01-28 18:27:16.002][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-01-28 18:27:16.002][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-01-28 18:27:16.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:16.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.008][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:16.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.012][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.013][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.014][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:16.015][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:16.017][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.018][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.020][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-01-28 18:27:16.022][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.024][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-01-28 18:27:16.025][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.026][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:16.028][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.029][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.031][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.032][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.033][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-01-28 18:27:16.035][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:16.036][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.038][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-01-28 18:27:16.039][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:16.040][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.042][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.043][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:16.043][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-01-28 18:27:16.043][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-01-28 18:27:16.043][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-01-28 18:27:16.043][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-01-28 18:27:16.045][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:16.046][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.047][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.049][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:16.050][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.051][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.052][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.054][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.055][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:16.056][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:16.058][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.059][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.061][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-01-28 18:27:16.063][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.065][self$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[2023-01-28 18:27:16.066][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:16.069][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.070][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.072][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.073][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.074][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-01-28 18:27:16.084][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:16.085][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.087][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-01-28 18:27:16.088][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:16.089][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.091][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.092][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.094][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:16.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.097][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:16.099][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.101][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.103][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.104][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:16.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:16.106][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.108][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.109][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-01-28 18:27:16.112][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.113][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-01-28 18:27:16.115][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.116][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:16.117][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.119][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.120][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.122][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.123][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-01-28 18:27:16.124][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:16.126][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.127][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-01-28 18:27:16.129][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:16.130][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.131][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.133][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.134][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-01-28 18:27:16.135][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.137][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.138][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:16.139][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.142][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.143][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.145][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:16.146][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:16.147][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.149][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.151][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:16.152][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.159][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[2023-01-28 18:27:16.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.268][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-01-28 18:27:16.270][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-01-28 18:27:16.272][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-01-28 18:27:16.274][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-01-28 18:27:16.276][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-01-28 18:27:16.278][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-01-28 18:27:16.280][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-01-28 18:27:16.282][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-01-28 18:27:16.285][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-01-28 18:27:16.287][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-01-28 18:27:16.289][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-01-28 18:27:16.291][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-01-28 18:27:16.293][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-01-28 18:27:16.295][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-01-28 18:27:16.297][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-01-28 18:27:16.299][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-01-28 18:27:16.301][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-01-28 18:27:16.303][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-01-28 18:27:16.305][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-01-28 18:27:16.307][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-01-28 18:27:16.309][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-01-28 18:27:16.311][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-01-28 18:27:16.313][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-01-28 18:27:16.315][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-01-28 18:27:16.317][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-01-28 18:27:16.319][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-01-28 18:27:16.321][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-01-28 18:27:16.323][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-01-28 18:27:16.325][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-01-28 18:27:16.327][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-01-28 18:27:16.329][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-01-28 18:27:16.331][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-01-28 18:27:16.333][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-01-28 18:27:16.335][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-01-28 18:27:16.337][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-01-28 18:27:16.339][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-01-28 18:27:16.341][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-01-28 18:27:16.343][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-01-28 18:27:16.345][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-01-28 18:27:16.347][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-01-28 18:27:16.349][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-01-28 18:27:16.351][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-01-28 18:27:16.353][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-01-28 18:27:16.355][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-01-28 18:27:16.357][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-01-28 18:27:16.359][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-01-28 18:27:16.361][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-01-28 18:27:16.363][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-01-28 18:27:16.365][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-01-28 18:27:16.367][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-01-28 18:27:16.370][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-01-28 18:27:16.372][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-01-28 18:27:16.374][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-01-28 18:27:16.376][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-01-28 18:27:16.386][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-01-28 18:27:16.388][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-01-28 18:27:16.390][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-01-28 18:27:16.392][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-01-28 18:27:16.394][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-01-28 18:27:16.396][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-01-28 18:27:16.398][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-01-28 18:27:16.400][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-01-28 18:27:16.402][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-01-28 18:27:16.404][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-01-28 18:27:16.406][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-01-28 18:27:16.408][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-01-28 18:27:16.410][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-01-28 18:27:16.412][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-01-28 18:27:16.414][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-01-28 18:27:16.416][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-01-28 18:27:16.418][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-01-28 18:27:16.420][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-01-28 18:27:16.422][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-01-28 18:27:16.424][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-01-28 18:27:16.426][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-01-28 18:27:16.428][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-01-28 18:27:16.430][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-01-28 18:27:16.432][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-01-28 18:27:16.434][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-01-28 18:27:16.436][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-01-28 18:27:16.438][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-01-28 18:27:16.440][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-01-28 18:27:16.442][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-01-28 18:27:16.444][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-01-28 18:27:16.446][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-01-28 18:27:16.447][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-01-28 18:27:16.449][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.451][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:16.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-01-28 18:27:16.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.610][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[2023-01-28 18:27:16.612][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-01-28 18:27:16.614][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:16.617][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.618][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.619][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.621][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-01-28 18:27:16.622][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.624][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-01-28 18:27:16.625][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.626][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.628][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-01-28 18:27:16.629][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-01-28 18:27:16.630][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.632][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-01-28 18:27:16.633][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-01-28 18:27:16.635][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-01-28 18:27:16.636][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-01-28 18:27:16.638][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-01-28 18:27:16.638][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-01-28 18:27:16.639][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-01-28 18:27:16.640][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.643][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-01-28 18:27:16.644][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-01-28 18:27:16.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-01-28 18:27:16.647][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-01-28 18:27:16.648][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-01-28 18:27:16.648][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-01-28 18:27:16.649][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:16.651][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:16.652][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-01-28 18:27:16.653][self$setPropertyValue]
biodb.DEBUG[2023-01-28 18:27:16.655][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-01-28 18:27:16.657][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-01-28 18:27:16.660][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-01-28 18:27:16.662][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-01-28 18:27:16.666][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:16.667][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-01-28 18:27:16.669][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:16.671][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:16.673][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:16.674][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:16.684][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-01-28 18:27:16.686][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-01-28 18:27:16.687][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-01-28 18:27:16.687][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-01-28 18:27:16.689][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-01-28 18:27:16.690][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-01-28 18:27:16.691][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-01-28 18:27:16.692][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-01-28 18:27:16.694][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-01-28 18:27:16.696][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:16.697][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:16.699][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:16.701][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/site-library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-01-28 18:27:16.702][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-01-28 18:27:16.704][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-01-28 18:27:16.706][biodb::testThat]
biodb.INFO [2023-01-28 18:27:16.707][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2023-01-28 18:27:16.708][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-01-28 18:27:16.710][biodb::testThat]
biodb.DEBUG[2023-01-28 18:27:16.724][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-01-28 18:27:16.725][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-01-28 18:27:16.727][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-01-28 18:27:16.731][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:16.733][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:16.735][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:16.737][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:16.738][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:16.744][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:16.745][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:16.746][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:16.748][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:16.749][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-01-28 18:27:16.750][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-01-28 18:27:16.753][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-01-28 18:27:16.754][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-01-28 18:27:16.756][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:16.758][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-01-28 18:27:16.761][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-01-28 18:27:16.763][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-01-28 18:27:16.765][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-01-28 18:27:16.767][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-01-28 18:27:16.787][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-01-28 18:27:16.789][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-01-28 18:27:16.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:16.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:16.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:16.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:16.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:16.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:16.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-01-28 18:27:16.810][ef$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:16.811][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:16.813][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.814][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:16.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:16.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.825][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:16.826][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:16.828][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.829][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.840][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:16.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:16.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.849][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:16.851][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:16.852][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.853][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.855][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:16.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:16.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:16.866][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:16.868][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.869][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:16.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:16.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.881][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:16.882][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:16.884][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.885][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:16.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:16.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.897][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:16.898][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:16.899][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.901][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.903][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:16.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:16.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.912][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:16.914][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:16.915][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.917][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.919][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:16.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:16.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.928][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:16.930][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:16.931][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.933][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:16.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:16.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.944][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:16.946][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:16.947][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.949][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.951][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:16.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:16.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.961][ef$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:16.962][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:16.964][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.965][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.967][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:16.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:16.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.977][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:16.979][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:16.980][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.982][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:16.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:16.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:16.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:16.993][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.008][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.010][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.011][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.025][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.026][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.027][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.039][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.040][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.042][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.043][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.054][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.056][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.057][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.058][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.060][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:17.071][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:17.072][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.074][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.076][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:17.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:17.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.085][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:17.086][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.088][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.089][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.091][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:17.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.118][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.124][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.129][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.135][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.141][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.147][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.197][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.214][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.220][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.232][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.243][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.255][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.261][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.267][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:17.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:17.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.273][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:17.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:17.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:17.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:17.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:17.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:17.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:17.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:17.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:17.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:17.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.322][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.328][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.344][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.387][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.393][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.399][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:17.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:17.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.410][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:17.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:17.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.416][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:17.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:17.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.422][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:17.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.445][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:17.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.487][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:17.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:17.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.493][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:17.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:17.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.513][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:17.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:17.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:17.557][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-01-28 18:27:17.558][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.564][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.570][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.575][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:17.581][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-01-28 18:27:17.582][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-01-28 18:27:17.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:17.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:17.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:17.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:17.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:17.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:17.598][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[2023-01-28 18:27:17.599][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-01-28 18:27:17.601][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-01-28 18:27:17.603][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:17.605][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-01-28 18:27:17.608][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-01-28 18:27:17.610][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-01-28 18:27:17.612][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-01-28 18:27:17.613][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-01-28 18:27:17.633][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-01-28 18:27:17.635][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-01-28 18:27:17.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:17.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:17.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:17.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:17.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:17.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:17.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-01-28 18:27:17.664][ef$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.665][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.667][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.668][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.680][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.681][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.682][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.684][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.686][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.695][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.696][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.698][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.699][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.701][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.713][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.715][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.726][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.728][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.729][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.730][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:17.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.742][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.743][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.745][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.746][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.748][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:17.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.757][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.758][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.760][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.761][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.763][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:17.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.772][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.774][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.775][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.776][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.778][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:17.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.788][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.789][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.791][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.792][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.794][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:17.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.803][ef$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:17.805][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:17.806][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.807][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:17.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:17.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.827][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:17.829][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:17.830][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.832][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:17.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:17.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.843][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.845][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.846][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.848][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:17.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.859][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.860][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.861][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.863][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.874][ef$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.876][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.877][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.878][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:17.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.889][ef$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.891][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.892][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.894][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.895][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:17.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:17.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.905][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:17.906][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:17.908][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.909][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.911][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:17.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:17.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.920][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:17.922][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.923][ef$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.925][ef$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.927][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-01-28 18:27:17.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:17.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:17.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:17.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.953][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.959][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.964][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-01-28 18:27:17.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.970][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.976][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.989][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-01-28 18:27:17.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:17.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:17.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:17.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:18.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:18.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-01-28 18:27:18.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-01-28 18:27:18.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:18.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:18.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:18.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:18.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:18.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-01-28 18:27:18.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.029][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:18.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:18.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.035][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:18.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:18.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:18.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-01-28 18:27:18.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.046][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:18.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:18.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.052][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:18.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:18.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.057][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:18.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-01-28 18:27:18.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.063][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:18.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.068][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:18.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:18.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.074][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:18.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-01-28 18:27:18.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.080][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.085][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.091][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:18.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:18.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:18.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:18.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.108][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-01-28 18:27:18.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-01-28 18:27:18.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:18.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:18.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:18.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:18.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-01-28 18:27:18.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-01-28 18:27:18.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.157][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:18.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:18.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.162][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:18.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:18.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.168][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:18.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-01-28 18:27:18.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:18.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:18.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:18.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:18.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:18.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-01-28 18:27:18.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.196][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.202][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.207][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:18.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:18.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.213][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:18.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:18.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.219][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:18.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-01-28 18:27:18.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.224][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:18.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:18.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:18.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:18.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.235][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-01-28 18:27:18.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-01-28 18:27:18.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.241][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:18.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.263][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-01-28 18:27:18.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-01-28 18:27:18.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.290][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-01-28 18:27:18.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-01-28 18:27:18.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.315][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:18.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:18.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.321][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:18.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:18.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:18.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:18.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.332][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:18.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-01-28 18:27:18.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:18.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:18.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:18.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:18.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:18.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:18.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:18.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:18.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:18.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:18.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-01-28 18:27:18.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-01-28 18:27:18.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:18.375][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-01-28 18:27:18.377][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.382][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.388][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:18.399][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-01-28 18:27:18.401][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:18.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:18.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:18.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:18.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:18.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:18.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:18.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:18.432][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-01-28 18:27:18.433][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-01-28 18:27:18.435][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-01-28 18:27:18.437][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:18.439][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:18.441][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:18.443][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:18.444][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:18.450][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:18.451][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:18.452][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:18.454][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:18.455][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-01-28 18:27:18.464][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-01-28 18:27:18.468][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.474][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.485][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.490][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.496][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.502][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:18.507][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-01-28 18:27:18.508][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-01-28 18:27:18.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:18.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:18.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:18.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:18.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:18.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:18.524][FUN] Functions in observer BiodbConfig: [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[2023-01-28 18:27:18.525][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.531][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.537][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.542][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.548][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.553][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.559][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:18.564][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-01-28 18:27:18.566][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-01-28 18:27:18.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:18.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:18.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:18.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:18.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:18.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:18.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-01-28 18:27:18.596][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-01-28 18:27:18.598][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-01-28 18:27:18.599][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-01-28 18:27:18.601][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:18.603][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:18.605][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-01-28 18:27:18.607][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-01-28 18:27:18.608][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-01-28 18:27:18.622][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-01-28 18:27:18.624][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-01-28 18:27:18.625][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-01-28 18:27:18.627][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-01-28 18:27:18.628][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-01-28 18:27:18.630][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-01-28 18:27:18.632][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.638][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.644][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.649][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.655][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.660][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.665][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:18.671][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-01-28 18:27:18.672][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-01-28 18:27:18.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:18.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:18.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:18.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:18.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:18.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:18.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-01-28 18:27:18.689][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.695][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.700][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.706][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.717][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-01-28 18:27:18.722][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-01-28 18:27:18.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-01-28 18:27:18.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-01-28 18:27:18.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-01-28 18:27:18.728][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-01-28 18:27:18.730][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-01-28 18:27:18.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-01-28 18:27:18.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:18.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:18.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:18.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:18.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:18.746][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.INFO [2023-01-28 18:27:18.750][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-01-28 18:27:18.752][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-01-28 18:27:18.754][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-01-28 18:27:18.755][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-01-28 18:27:18.756][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-01-28 18:27:18.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-01-28 18:27:18.759][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-01-28 18:27:18.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-01-28 18:27:18.761][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-01-28 18:27:18.762][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 186 ]
>
> proc.time()
user system elapsed
12.808 0.368 18.105