| Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-02-23 01:33:46 -0000 (Thu, 23 Feb 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" | 4245 |
| 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 181/2164 | 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 | OK | |||||||||
| 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: 2023-02-22 01:23:38 -0000 (Wed, 22 Feb 2023) |
| EndedAt: 2023-02-22 01:25:00 -0000 (Wed, 22 Feb 2023) |
| EllapsedTime: 82.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbHmdb.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### 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 installed package size ... NOTE
installed size is 6.5Mb
sub-directories of 1Mb or more:
libs 5.9Mb
* 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 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 ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* 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: 2 NOTEs
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/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/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/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/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/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/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/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/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/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/library/Rcpp/include' -I'/home/biocbuild/bbs-3.17-bioc/R/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/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 [2023-02-22 01:24:31.321][biodb::testContext]
biodb.INFO [2023-02-22 01:24:31.324][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:31.326][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-02-22 01:24:31.327][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:31.329][biodb::testContext]
biodb.INFO [2023-02-22 01:24:31.331][biodb::testThat]
biodb.INFO [2023-02-22 01:24:31.332][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2023-02-22 01:24:31.333][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:31.335][biodb::testThat]
biodb.INFO [2023-02-22 01:24:31.463][biodb::testContext]
biodb.INFO [2023-02-22 01:24:31.464][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:31.465][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-02-22 01:24:31.467][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:31.468][biodb::testContext]
biodb.INFO [2023-02-22 01:24:31.489][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-22 01:24:31.492][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-22 01:24:31.501][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:31.503][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-22 01:24:31.505][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-22 01:24:31.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.510][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-22 01:24:31.536][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-22 01:24:31.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.540][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[2023-02-22 01:24:31.542][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-22 01:24:31.543][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-22 01:24:31.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.549][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-22 01:24:31.550][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-22 01:24:31.552][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-22 01:24:31.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.557][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-22 01:24:31.558][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-22 01:24:31.560][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-22 01:24:31.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.565][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-22 01:24:31.567][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-22 01:24:31.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.572][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-22 01:24:31.573][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-22 01:24:31.575][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-22 01:24:31.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.580][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-22 01:24:31.582][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-22 01:24:31.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.587][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-22 01:24:31.589][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-22 01:24:31.590][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-22 01:24:31.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.595][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-22 01:24:31.597][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-22 01:24:31.598][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-22 01:24:31.600][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-22 01:24:31.601][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-22 01:24:31.603][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-22 01:24:31.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.608][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-22 01:24:31.610][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-22 01:24:31.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.626][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-22 01:24:31.627][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-22 01:24:31.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.632][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-22 01:24:31.634][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-22 01:24:31.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.639][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-22 01:24:31.641][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-22 01:24:31.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.646][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-22 01:24:31.647][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-22 01:24:31.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.653][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-22 01:24:31.654][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-22 01:24:31.659][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-22 01:24:31.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.664][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-22 01:24:31.666][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-22 01:24:31.667][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-22 01:24:31.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.676][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-22 01:24:31.724][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.748][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-22 01:24:31.750][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.751][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:31.753][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.754][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.756][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.757][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.759][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-22 01:24:31.760][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:31.762][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.763][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-22 01:24:31.765][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:31.766][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.768][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.769][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:31.769][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-22 01:24:31.769][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-22 01:24:31.769][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-22 01:24:31.769][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-22 01:24:31.771][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:31.772][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.774][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.775][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:31.777][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.778][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.779][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.781][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.782][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:31.784][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:31.785][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.787][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.788][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-22 01:24:31.791][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.792][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-22 01:24:31.794][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.795][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:31.797][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.798][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.800][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.801][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.803][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-22 01:24:31.804][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:31.806][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.807][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-22 01:24:31.809][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:31.810][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.812][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.813][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:31.813][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-22 01:24:31.813][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-22 01:24:31.813][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-22 01:24:31.813][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-22 01:24:31.815][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:31.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.818][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.819][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:31.821][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.822][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.823][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.825][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.826][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:31.828][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:31.829][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.831][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.833][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-22 01:24:31.835][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.837][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-22 01:24:31.838][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.840][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:31.841][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.843][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.844][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.846][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.847][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-22 01:24:31.849][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:31.850][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.852][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-22 01:24:31.853][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:31.855][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.856][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.858][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.859][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:31.861][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.862][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.863][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:31.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.868][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.869][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.871][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:31.872][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:31.873][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.875][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.877][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-22 01:24:31.888][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.889][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-22 01:24:31.891][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.893][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:31.894][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.896][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.897][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.899][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.900][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-22 01:24:31.902][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:31.904][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.905][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-22 01:24:31.907][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:31.908][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.910][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:31.911][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.913][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:31.914][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.916][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.917][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:31.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:31.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:31.922][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:31.923][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.925][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:31.926][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:31.928][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:31.930][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:31.936][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:31.937][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.939][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[2023-02-22 01:24:31.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.945][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[2023-02-22 01:24:31.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.952][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[2023-02-22 01:24:31.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.958][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[2023-02-22 01:24:31.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:31.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:31.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:31.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:31.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:31.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.050][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-22 01:24:32.056][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-22 01:24:32.058][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-22 01:24:32.060][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-22 01:24:32.062][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-22 01:24:32.064][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-22 01:24:32.066][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-22 01:24:32.068][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-22 01:24:32.070][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-22 01:24:32.072][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-22 01:24:32.074][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-22 01:24:32.076][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-22 01:24:32.078][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-22 01:24:32.080][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-22 01:24:32.082][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-22 01:24:32.084][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-22 01:24:32.087][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-22 01:24:32.089][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-22 01:24:32.091][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-22 01:24:32.093][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-22 01:24:32.095][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-22 01:24:32.097][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-22 01:24:32.099][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-22 01:24:32.101][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-22 01:24:32.103][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-22 01:24:32.105][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-22 01:24:32.107][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-22 01:24:32.109][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-22 01:24:32.111][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-22 01:24:32.113][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-22 01:24:32.115][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-22 01:24:32.117][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-22 01:24:32.119][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-22 01:24:32.121][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-22 01:24:32.123][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-22 01:24:32.125][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-22 01:24:32.127][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-22 01:24:32.129][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-22 01:24:32.132][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-22 01:24:32.134][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-22 01:24:32.136][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-22 01:24:32.138][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-22 01:24:32.140][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-22 01:24:32.152][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-22 01:24:32.154][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-22 01:24:32.156][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-22 01:24:32.158][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-22 01:24:32.160][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-22 01:24:32.162][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-22 01:24:32.164][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-22 01:24:32.166][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-22 01:24:32.168][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-22 01:24:32.170][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-22 01:24:32.172][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-22 01:24:32.174][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-22 01:24:32.176][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-22 01:24:32.178][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-22 01:24:32.180][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-22 01:24:32.182][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-22 01:24:32.184][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-22 01:24:32.186][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-22 01:24:32.188][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-22 01:24:32.190][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-22 01:24:32.192][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-22 01:24:32.194][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-22 01:24:32.196][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-22 01:24:32.198][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-22 01:24:32.200][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-22 01:24:32.202][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-22 01:24:32.204][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-22 01:24:32.206][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-22 01:24:32.208][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-22 01:24:32.210][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-22 01:24:32.212][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-22 01:24:32.214][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-22 01:24:32.216][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-22 01:24:32.218][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-22 01:24:32.220][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-22 01:24:32.222][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-22 01:24:32.225][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-22 01:24:32.227][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-22 01:24:32.229][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-22 01:24:32.231][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-22 01:24:32.239][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-22 01:24:32.241][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-22 01:24:32.246][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:32.247][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.250][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.310][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[2023-02-22 01:24:32.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:32.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:32.449][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-22 01:24:32.463][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:32.465][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:32.467][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-22 01:24:32.469][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:32.470][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:32.471][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:32.473][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-22 01:24:32.474][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:32.476][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:32.477][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-22 01:24:32.478][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:32.480][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:32.481][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-22 01:24:32.483][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-22 01:24:32.484][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-22 01:24:32.486][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:32.487][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:32.487][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-22 01:24:32.488][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-22 01:24:32.490][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:32.491][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:32.492][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:32.494][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:32.495][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:32.496][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:32.498][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-22 01:24:32.498][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-22 01:24:32.499][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:32.500][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:32.502][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:32.503][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:32.511][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-22 01:24:32.514][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-22 01:24:32.516][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-22 01:24:32.518][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-22 01:24:32.550][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:32.552][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-22 01:24:32.558][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:32.563][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:32.569][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:32.570][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:32.572][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-22 01:24:32.573][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-22 01:24:32.575][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-22 01:24:32.575][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-22 01:24:32.576][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:32.577][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:32.578][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-22 01:24:32.580][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-22 01:24:32.581][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:32.604][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:32.606][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:32.608][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:32.609][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:32.611][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:32.612][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-22 01:24:32.632][biodb::testThat]
biodb.INFO [2023-02-22 01:24:32.634][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-02-22 01:24:32.635][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:32.636][biodb::testThat]
biodb.TRACE[2023-02-22 01:24:32.643][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2023-02-22 01:24:32.649][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-22 01:24:32.654][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-22 01:24:32.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:32.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:32.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:32.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:32.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:32.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:32.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-22 01:24:32.707][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:32.708][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:32.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.711][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:32.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:32.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.739][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:32.740][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:32.742][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.743][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.782][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:32.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:32.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.791][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:32.793][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:32.794][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.795][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.797][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:32.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:32.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:32.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:32.809][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.811][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:32.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:32.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.822][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:32.824][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:32.825][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.826][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:32.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:32.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:32.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:32.841][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.842][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.844][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:32.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:32.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.853][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:32.855][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:32.856][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.857][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.859][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:32.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:32.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.869][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:32.871][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:32.872][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.874][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.876][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:32.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:32.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.885][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:32.887][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:32.888][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.889][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.891][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:32.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:32.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.909][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:32.911][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:32.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.913][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.915][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:32.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:32.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.924][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:32.926][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:32.927][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.929][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:32.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:32.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.940][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:32.942][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:32.943][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.944][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:32.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:32.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.957][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:32.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:32.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.961][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:32.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:32.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.973][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:32.974][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:32.976][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.977][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:32.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:32.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.988][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:32.990][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:32.991][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.992][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:32.994][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:32.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:32.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:32.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.004][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:33.005][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:33.007][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.008][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.010][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:33.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:33.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.019][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:33.021][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.022][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.024][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.026][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:33.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.098][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:33.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:33.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.111][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:33.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:33.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.117][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:33.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:33.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.122][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:33.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:33.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.128][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:33.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:33.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.133][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:33.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:33.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:33.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:33.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.179][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:33.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:33.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.185][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:33.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:33.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.191][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:33.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:33.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:33.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:33.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:33.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:33.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.214][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.220][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:33.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.226][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.231][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.237][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.254][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:33.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:33.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:33.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:33.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:33.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:33.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.295][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.306][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:33.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:33.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:33.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:33.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:33.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:33.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.353][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.359][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.364][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.372][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:33.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:33.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:33.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:33.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.383][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:33.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:33.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.389][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:33.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.411][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:33.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:33.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.476][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.482][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.493][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:33.544][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-22 01:24:33.550][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-22 01:24:33.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-22 01:24:33.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.556][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-22 01:24:33.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-22 01:24:33.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.562][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-22 01:24:33.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-22 01:24:33.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.567][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-22 01:24:33.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-22 01:24:33.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.606][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.654][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.659][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.665][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:33.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.698][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.699][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.701][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.702][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:33.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:33.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.744][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.746][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.749][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:33.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.766][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.771][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.778][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.784][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.785][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.787][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.788][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.790][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:33.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.825][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.826][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:33.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.843][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.849][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.855][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.860][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.862][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.863][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.864][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.866][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:33.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.898][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.899][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.900][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.902][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:33.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:33.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.918][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.929][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.942][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.944][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.947][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:33.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:33.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.969][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.982][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.983][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.985][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.986][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:33.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:33.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:33.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.003][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.009][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.014][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.020][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.022][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.024][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.026][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.058][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.060][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.061][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.062][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.079][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.085][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.091][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.096][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.098][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.099][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.101][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.102][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.117][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.123][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.129][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.135][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.136][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.138][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.139][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.148][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.163][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.169][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.175][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.182][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.184][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.185][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.186][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.188][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:34.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:34.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.209][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:34.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:34.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:34.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:34.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.221][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:34.223][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:34.224][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.225][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:34.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:34.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.260][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.261][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.263][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.264][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.298][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.300][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.301][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.303][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.320][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.332][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.339][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.345][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.347][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.350][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.352][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.387][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:34.389][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:34.391][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.393][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.402][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.403][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.405][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.406][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.415][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.417][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.419][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.420][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:34.431][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:34.432][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.434][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.443][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:34.444][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:34.446][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.447][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.456][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.458][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.459][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.461][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.470][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.472][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.473][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.475][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.483][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.485][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:34.487][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.488][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.497][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:34.498][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:34.500][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.501][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.510][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:34.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:34.513][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.515][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.523][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.525][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.527][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.528][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.537][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.538][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.540][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.541][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.550][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:34.552][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:34.554][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.555][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.564][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.565][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.567][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.568][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.577][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:34.580][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:34.581][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.582][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.591][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:34.592][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:34.594][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.595][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.611][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:34.612][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:34.614][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.615][ef$get] fields variable is a list.
biodb.INFO [2023-02-22 01:24:34.625][biodb::testThat]
biodb.INFO [2023-02-22 01:24:34.626][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-02-22 01:24:34.628][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:34.629][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:34.650][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-02-22 01:24:34.660][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-22 01:24:34.667][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:34.670][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-22 01:24:34.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-02-22 01:24:34.674][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-22 01:24:34.679][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-02-22 01:24:34.681][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-22 01:24:34.739][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-22 01:24:34.741][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-22 01:24:34.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:34.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:34.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:34.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:34.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:34.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:34.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-22 01:24:34.763][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:34.765][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:34.766][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.768][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:34.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:34.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.779][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.781][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.783][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.784][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.786][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.796][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.798][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.799][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.800][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.803][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:34.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:34.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:34.824][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.826][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:34.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:34.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.838][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:34.840][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:34.841][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.842][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:34.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:34.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.854][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:34.856][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:34.857][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.859][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.861][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:34.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:34.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.871][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:34.872][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:34.874][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.875][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.877][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:34.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:34.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.887][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.889][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.890][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.892][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:34.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.904][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.905][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.907][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.908][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:34.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.920][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:34.922][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:34.923][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.925][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.927][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:34.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:34.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.936][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.938][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.939][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.941][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:34.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:34.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.953][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.955][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.956][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.957][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.971][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.972][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.973][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.986][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:34.987][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:34.989][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.990][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:34.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:34.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:34.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:34.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.002][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.003][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.005][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.006][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.017][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:35.019][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:35.020][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.029][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.032][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:35.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.041][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:35.043][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.044][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.046][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.048][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:35.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.075][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:35.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:35.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.081][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:35.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:35.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.086][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:35.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.092][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:35.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.098][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:35.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:35.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.104][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:35.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:35.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:35.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:35.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:35.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:35.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:35.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:35.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:35.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:35.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:35.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:35.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.145][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:35.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:35.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.151][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:35.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:35.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:35.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:35.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.162][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:35.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:35.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.168][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:35.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:35.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:35.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:35.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.185][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.191][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:35.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.197][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.203][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.208][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.214][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:35.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:35.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.220][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:35.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:35.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.234][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:35.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:35.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:35.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:35.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:35.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:35.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:35.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:35.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.275][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:35.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:35.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.281][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:35.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:35.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:35.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:35.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:35.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:35.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:35.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:35.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:35.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:35.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.311][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.316][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.322][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.328][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:35.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:35.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.334][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:35.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:35.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.340][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:35.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:35.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.346][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:35.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:35.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.352][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:35.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:35.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.358][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:35.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:35.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.364][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:35.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.388][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.441][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.447][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:35.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:35.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.459][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:35.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:35.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:35.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:35.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:35.504][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-22 01:24:35.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-02-22 01:24:35.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-02-22 01:24:35.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-02-22 01:24:35.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-02-22 01:24:35.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-02-22 01:24:35.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-02-22 01:24:35.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-22 01:24:35.531][biodb::testThat]
biodb.INFO [2023-02-22 01:24:35.533][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-02-22 01:24:35.534][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:35.536][biodb::testThat]
biodb.TRACE[2023-02-22 01:24:35.540][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.541][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.543][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.544][ef$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:35.546][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-02-22 01:24:35.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.598][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:35.607][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-02-22 01:24:35.620][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-02-22 01:24:35.621][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-22 01:24:35.623][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-22 01:24:35.625][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:35.627][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:35.629][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:35.639][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:35.641][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:35.647][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:35.648][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:35.650][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:35.652][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:35.653][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-22 01:24:35.654][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-22 01:24:35.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.669][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.675][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:35.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:35.681][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-22 01:24:35.682][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-22 01:24:35.684][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-02-22 01:24:35.705][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.706][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.708][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.709][ef$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:35.711][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-02-22 01:24:35.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.738][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.744][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:35.752][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[2023-02-22 01:24:35.849][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-22 01:24:35.851][private$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[2023-02-22 01:24:35.852][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-02-22 01:24:35.873][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:35.875][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:35.877][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:35.879][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:35.880][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:35.906][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:35.908][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:35.910][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:35.911][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:35.912][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-22 01:24:35.914][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-22 01:24:35.916][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.925][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.931][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:35.937][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:35.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:35.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:35.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:35.943][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-22 01:24:35.944][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-22 01:24:35.945][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-02-22 01:24:35.967][biodb::testThat]
biodb.INFO [2023-02-22 01:24:35.969][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-02-22 01:24:35.970][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:35.972][biodb::testThat]
biodb.TRACE[2023-02-22 01:24:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:35.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:36.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.003][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:36.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:36.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:36.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:36.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:36.045][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-02-22 01:24:36.046][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-22 01:24:36.048][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-22 01:24:36.050][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:36.052][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:36.054][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:36.056][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:36.057][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:36.063][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:36.064][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:36.065][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:36.067][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:36.068][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-22 01:24:36.069][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-22 01:24:36.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:36.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:36.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:36.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.083][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:36.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:36.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:36.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:36.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:36.094][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-22 01:24:36.095][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-02-22 01:24:36.116][biodb::testThat]
biodb.INFO [2023-02-22 01:24:36.118][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-02-22 01:24:36.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:36.120][biodb::testThat]
biodb.TRACE[2023-02-22 01:24:36.155][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.161][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.166][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-22 01:24:36.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-22 01:24:36.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.171][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-22 01:24:36.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-22 01:24:36.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.245][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.251][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-22 01:24:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.256][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-22 01:24:36.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-22 01:24:36.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:36.262][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-22 01:24:36.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-22 01:24:36.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:36.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-22 01:24:36.271][biodb::testThat]
biodb.INFO [2023-02-22 01:24:36.272][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-02-22 01:24:36.273][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:36.274][biodb::testThat]
biodb.INFO [2023-02-22 01:24:36.281][biodb::testThat]
biodb.INFO [2023-02-22 01:24:36.282][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-02-22 01:24:36.283][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:36.285][biodb::testThat]
biodb.INFO [2023-02-22 01:24:36.291][biodb::testThat]
biodb.INFO [2023-02-22 01:24:36.292][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-02-22 01:24:36.293][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:36.295][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:36.299][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-02-22 01:24:38.734][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-02-22 01:24:39.257][biodb::testThat]
biodb.INFO [2023-02-22 01:24:39.258][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-02-22 01:24:39.260][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:39.261][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:40.971][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-02-22 01:24:42.194][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:42.196][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:42.212][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.220][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.222][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:42.223][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:42.225][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.226][ef$get] fields variable is a list.
biodb.INFO [2023-02-22 01:24:42.228][biodb::testThat]
biodb.INFO [2023-02-22 01:24:42.229][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-02-22 01:24:42.231][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:42.232][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:42.235][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-02-22 01:24:42.305][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-22 01:24:42.307][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.309][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-22 01:24:42.333][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-02-22 01:24:42.334][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-02-22 01:24:42.336][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-02-22 01:24:42.337][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-22 01:24:42.339][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.401][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-22 01:24:42.403][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-22 01:24:42.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:42.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:42.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:42.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:42.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:42.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.419][FUN] Functions in observer BiodbConfig: [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[2023-02-22 01:24:42.422][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.427][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:42.467][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-02-22 01:24:42.468][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-02-22 01:24:42.489][biodb::testThat]
biodb.INFO [2023-02-22 01:24:42.491][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-02-22 01:24:42.492][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:42.493][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:42.502][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-02-22 01:24:42.504][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-02-22 01:24:42.505][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-22 01:24:42.508][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.510][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-22 01:24:42.512][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-02-22 01:24:42.514][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-02-22 01:24:42.516][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-02-22 01:24:42.517][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-22 01:24:42.519][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.549][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-22 01:24:42.551][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-22 01:24:42.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:42.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:42.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:42.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:42.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:42.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-22 01:24:42.570][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.575][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:42.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:42.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:42.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:42.615][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-02-22 01:24:42.616][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-02-22 01:24:42.617][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-02-22 01:24:42.634][biodb::testThat]
biodb.INFO [2023-02-22 01:24:42.635][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-02-22 01:24:42.636][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:42.638][biodb::testThat]
biodb.INFO [2023-02-22 01:24:42.664][biodb::testThat]
biodb.INFO [2023-02-22 01:24:42.665][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-02-22 01:24:42.666][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:42.668][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:42.671][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.673][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.675][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:42.677][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.678][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:42.684][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:42.686][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:42.687][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:42.688][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-02-22 01:24:42.705][biodb::testThat]
biodb.INFO [2023-02-22 01:24:42.707][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-02-22 01:24:42.708][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:42.710][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:42.713][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.715][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.717][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:42.719][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:42.720][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:42.726][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:42.728][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:42.729][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:42.730][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-02-22 01:24:42.747][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:42.748][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:42.750][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.751][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:42.752][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:42.754][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:42.755][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:42.756][ef$get] fields variable is a list.
biodb.INFO [2023-02-22 01:24:42.758][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-22 01:24:42.759][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-22 01:24:42.770][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-22 01:24:42.772][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-22 01:24:42.773][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:42.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:42.775][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:42.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:42.778][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-22 01:24:42.784][biodb::testContext]
biodb.INFO [2023-02-22 01:24:42.785][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:42.787][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-02-22 01:24:42.788][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:42.789][biodb::testContext]
biodb.INFO [2023-02-22 01:24:42.797][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-22 01:24:42.799][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-22 01:24:42.804][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:42.806][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-22 01:24:42.807][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-22 01:24:42.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.812][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-22 01:24:42.814][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-22 01:24:42.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.819][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-22 01:24:42.820][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-22 01:24:42.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.826][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-22 01:24:42.827][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-22 01:24:42.828][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-22 01:24:42.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.834][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-22 01:24:42.835][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-22 01:24:42.837][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-22 01:24:42.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.842][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-22 01:24:42.843][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-22 01:24:42.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.848][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-22 01:24:42.850][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-22 01:24:42.851][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-22 01:24:42.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.865][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-22 01:24:42.866][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-22 01:24:42.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.872][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-22 01:24:42.873][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-22 01:24:42.874][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-22 01:24:42.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.880][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-22 01:24:42.881][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-22 01:24:42.882][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-22 01:24:42.884][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-22 01:24:42.885][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-22 01:24:42.887][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-22 01:24:42.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.890][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[2023-02-22 01:24:42.892][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-22 01:24:42.894][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-22 01:24:42.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.899][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-22 01:24:42.900][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-22 01:24:42.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.904][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[2023-02-22 01:24:42.906][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-22 01:24:42.907][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-22 01:24:42.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.912][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-22 01:24:42.914][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-22 01:24:42.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.917][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[2023-02-22 01:24:42.919][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-22 01:24:42.920][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-22 01:24:42.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.925][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-22 01:24:42.927][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-22 01:24:42.931][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-22 01:24:42.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.936][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-22 01:24:42.938][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-22 01:24:42.939][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-22 01:24:42.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:42.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:42.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:42.944][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-22 01:24:42.947][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:42.948][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-22 01:24:42.950][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:42.951][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:42.953][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:42.954][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:42.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:42.957][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:42.958][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-22 01:24:42.960][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:42.961][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:42.962][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-22 01:24:42.964][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:42.965][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:42.967][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:42.968][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:42.968][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-22 01:24:42.968][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-22 01:24:42.968][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-22 01:24:42.968][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-22 01:24:42.969][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:42.971][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:42.972][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:42.973][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:42.975][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:42.976][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:42.977][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:42.979][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:42.980][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:42.981][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:42.983][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:42.984][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:42.986][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-22 01:24:42.988][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:42.990][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-22 01:24:42.991][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:42.992][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:42.994][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:42.995][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:42.997][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:42.998][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.000][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-22 01:24:43.001][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:43.002][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.004][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-22 01:24:43.005][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:43.007][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.008][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.009][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:43.009][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-22 01:24:43.009][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-22 01:24:43.009][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-22 01:24:43.009][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-22 01:24:43.011][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:43.020][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.021][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.023][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:43.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.027][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.028][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.030][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:43.031][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:43.032][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.034][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.035][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-22 01:24:43.038][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.039][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-22 01:24:43.041][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.042][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:43.043][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.045][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.046][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.047][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.049][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-22 01:24:43.050][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:43.052][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.053][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-22 01:24:43.054][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:43.056][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.057][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.059][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.060][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:43.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.063][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.064][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:43.065][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.067][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.068][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.070][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.071][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:43.072][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:43.073][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.075][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.076][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-22 01:24:43.079][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.080][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-22 01:24:43.082][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.083][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:43.085][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.090][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.092][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.094][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.096][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-22 01:24:43.097][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:43.099][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.100][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-22 01:24:43.102][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:43.104][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.105][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.107][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.108][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:43.110][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.111][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.113][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:43.114][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.117][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.119][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.120][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:43.122][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:43.123][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.125][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.127][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:43.128][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.178][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[2023-02-22 01:24:43.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.233][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[2023-02-22 01:24:43.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.261][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-22 01:24:43.263][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-22 01:24:43.265][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-22 01:24:43.267][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-22 01:24:43.269][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-22 01:24:43.270][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-22 01:24:43.272][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-22 01:24:43.274][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-22 01:24:43.276][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-22 01:24:43.278][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-22 01:24:43.280][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-22 01:24:43.282][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-22 01:24:43.284][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-22 01:24:43.286][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-22 01:24:43.288][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-22 01:24:43.290][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-22 01:24:43.292][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-22 01:24:43.294][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-22 01:24:43.296][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-22 01:24:43.297][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-22 01:24:43.300][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-22 01:24:43.302][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-22 01:24:43.304][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-22 01:24:43.306][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-22 01:24:43.308][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-22 01:24:43.310][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-22 01:24:43.312][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-22 01:24:43.314][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-22 01:24:43.316][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-22 01:24:43.317][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-22 01:24:43.319][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-22 01:24:43.321][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-22 01:24:43.323][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-22 01:24:43.325][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-22 01:24:43.327][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-22 01:24:43.329][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-22 01:24:43.331][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-22 01:24:43.333][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-22 01:24:43.335][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-22 01:24:43.337][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-22 01:24:43.339][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-22 01:24:43.349][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-22 01:24:43.351][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-22 01:24:43.353][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-22 01:24:43.355][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-22 01:24:43.357][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-22 01:24:43.359][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-22 01:24:43.361][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-22 01:24:43.363][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-22 01:24:43.365][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-22 01:24:43.367][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-22 01:24:43.369][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-22 01:24:43.371][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-22 01:24:43.373][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-22 01:24:43.375][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-22 01:24:43.377][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-22 01:24:43.379][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-22 01:24:43.381][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-22 01:24:43.383][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-22 01:24:43.385][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-22 01:24:43.387][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-22 01:24:43.389][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-22 01:24:43.391][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-22 01:24:43.393][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-22 01:24:43.395][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-22 01:24:43.397][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-22 01:24:43.399][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-22 01:24:43.401][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-22 01:24:43.403][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-22 01:24:43.405][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-22 01:24:43.407][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-22 01:24:43.409][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-22 01:24:43.411][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-22 01:24:43.413][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-22 01:24:43.415][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-22 01:24:43.417][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-22 01:24:43.419][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-22 01:24:43.421][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-22 01:24:43.423][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-22 01:24:43.425][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-22 01:24:43.427][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-22 01:24:43.429][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-22 01:24:43.431][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-22 01:24:43.433][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-22 01:24:43.435][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-22 01:24:43.436][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:43.438][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.440][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.441][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[2023-02-22 01:24:43.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.450][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[2023-02-22 01:24:43.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.485][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[2023-02-22 01:24:43.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.502][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[2023-02-22 01:24:43.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.546][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[2023-02-22 01:24:43.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:43.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:43.599][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-22 01:24:43.601][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:43.603][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.605][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.606][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.608][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:43.609][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.610][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-22 01:24:43.612][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.613][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.614][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-22 01:24:43.616][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:43.617][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.619][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-22 01:24:43.620][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-22 01:24:43.621][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-22 01:24:43.623][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:43.624][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:43.624][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-22 01:24:43.626][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-22 01:24:43.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.630][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:43.631][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:43.633][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:43.634][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:43.636][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-22 01:24:43.636][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-22 01:24:43.637][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:43.638][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:43.640][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:43.641][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:43.651][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-22 01:24:43.654][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-22 01:24:43.656][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-22 01:24:43.658][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-22 01:24:43.663][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:43.664][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-22 01:24:43.666][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:43.668][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:43.670][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:43.671][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:43.673][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-22 01:24:43.674][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-22 01:24:43.676][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-22 01:24:43.676][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-22 01:24:43.677][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:43.679][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:43.680][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-22 01:24:43.681][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-22 01:24:43.683][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:43.708][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:43.709][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:43.711][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:43.713][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:43.714][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:43.716][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-22 01:24:43.717][biodb::testThat]
biodb.INFO [2023-02-22 01:24:43.719][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-02-22 01:24:43.720][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:43.721][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:43.727][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:43.729][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:43.731][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:43.733][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:43.734][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:43.740][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:43.741][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:43.743][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:43.744][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:43.748][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-02-22 01:24:43.751][biodb::testThat]
biodb.INFO [2023-02-22 01:24:43.752][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-02-22 01:24:43.754][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:43.755][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:43.758][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-02-22 01:24:43.760][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-22 01:24:43.762][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:43.764][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-22 01:24:43.767][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-02-22 01:24:43.769][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-22 01:24:43.772][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-22 01:24:43.773][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-22 01:24:43.795][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-22 01:24:43.797][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-22 01:24:43.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:43.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:43.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:43.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:43.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:43.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:43.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-22 01:24:43.828][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:43.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:43.831][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.832][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:43.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.843][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:43.845][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:43.847][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.848][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.850][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:43.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.860][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:43.862][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:43.863][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.865][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.867][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:43.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:43.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:43.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:43.879][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.880][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:43.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:43.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.892][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:43.893][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:43.895][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.896][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:43.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:43.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.909][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:43.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:43.912][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.913][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.915][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:43.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:43.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.925][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:43.926][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:43.928][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.929][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.931][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:43.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:43.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.941][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:43.942][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:43.944][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.945][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.947][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:43.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:43.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.956][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:43.958][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:43.959][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.961][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.963][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:43.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:43.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.981][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:43.982][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:43.984][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.985][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:43.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:43.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:43.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:43.996][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:43.998][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:43.999][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.001][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:44.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:44.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.012][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.014][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.015][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.016][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.028][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.029][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.031][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.032][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.044][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.046][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.047][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.048][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.050][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.060][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:44.061][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:44.063][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.064][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.066][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:44.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:44.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:44.077][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:44.078][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.080][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:44.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:44.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.091][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:44.093][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.094][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.096][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.098][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:44.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.126][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:44.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:44.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.140][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:44.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:44.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.146][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:44.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:44.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.151][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:44.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:44.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.157][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:44.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:44.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.163][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:44.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:44.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:44.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:44.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:44.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:44.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:44.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:44.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:44.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:44.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:44.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:44.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:44.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:44.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:44.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:44.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:44.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.214][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:44.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:44.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.219][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:44.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:44.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.225][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:44.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:44.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.230][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:44.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:44.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.242][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:44.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.253][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:44.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:44.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.259][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:44.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:44.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.264][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:44.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:44.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:44.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:44.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:44.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:44.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:44.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:44.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:44.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:44.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:44.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:44.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.330][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:44.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:44.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.335][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:44.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:44.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.341][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:44.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:44.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:44.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.375][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.380][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:44.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:44.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.386][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:44.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:44.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.391][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:44.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:44.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.397][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:44.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:44.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.402][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:44.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:44.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:44.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:44.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.414][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:44.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.436][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:44.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:44.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.460][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.472][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:44.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:44.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.487][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:44.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.492][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:44.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:44.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.503][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:44.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:44.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:44.548][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-02-22 01:24:44.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:44.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:44.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:44.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:44.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-22 01:24:44.569][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-22 01:24:44.571][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-22 01:24:44.573][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-22 01:24:44.574][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-22 01:24:44.575][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:44.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:44.578][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.580][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-22 01:24:44.586][biodb::testContext]
biodb.INFO [2023-02-22 01:24:44.588][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:44.589][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-02-22 01:24:44.590][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-22 01:24:44.592][biodb::testContext]
biodb.INFO [2023-02-22 01:24:44.609][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-22 01:24:44.611][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-22 01:24:44.615][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:44.617][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-22 01:24:44.618][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-22 01:24:44.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.623][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-22 01:24:44.625][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-22 01:24:44.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.630][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-22 01:24:44.631][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-22 01:24:44.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.636][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-22 01:24:44.638][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-22 01:24:44.639][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-22 01:24:44.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.644][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-22 01:24:44.646][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-22 01:24:44.647][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-22 01:24:44.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.651][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.DEBUG[2023-02-22 01:24:44.652][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-22 01:24:44.654][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-22 01:24:44.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.659][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-22 01:24:44.660][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-22 01:24:44.661][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-22 01:24:44.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.666][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-22 01:24:44.668][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-22 01:24:44.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.673][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-22 01:24:44.674][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-22 01:24:44.676][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-22 01:24:44.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.681][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-22 01:24:44.682][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-22 01:24:44.683][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-22 01:24:44.685][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-22 01:24:44.686][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-22 01:24:44.688][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-22 01:24:44.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.693][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-22 01:24:44.694][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-22 01:24:44.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.699][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-22 01:24:44.700][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-22 01:24:44.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.705][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-22 01:24:44.707][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-22 01:24:44.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.710][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[2023-02-22 01:24:44.712][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-22 01:24:44.714][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-22 01:24:44.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.720][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-22 01:24:44.721][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-22 01:24:44.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.726][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-22 01:24:44.728][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-22 01:24:44.732][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-22 01:24:44.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.737][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-22 01:24:44.738][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-22 01:24:44.740][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-22 01:24:44.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.745][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-22 01:24:44.748][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.749][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-22 01:24:44.750][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.760][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:44.762][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.763][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.764][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.766][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.767][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-22 01:24:44.769][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:44.770][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.771][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-22 01:24:44.773][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:44.774][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.776][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.777][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:44.777][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-22 01:24:44.777][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-22 01:24:44.777][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-22 01:24:44.777][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-22 01:24:44.779][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:44.780][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.781][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.783][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:44.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.790][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.792][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.794][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:44.795][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:44.797][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.798][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.800][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-22 01:24:44.803][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.805][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-22 01:24:44.807][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.808][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:44.810][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.811][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.813][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.814][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.816][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-22 01:24:44.818][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:44.819][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.821][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-22 01:24:44.822][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:44.824][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.825][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.827][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:44.827][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-22 01:24:44.827][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-22 01:24:44.827][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-22 01:24:44.827][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-22 01:24:44.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:44.830][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.831][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.833][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:44.834][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.836][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.837][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.839][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.840][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:44.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:44.843][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.845][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.847][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-22 01:24:44.849][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.851][self$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[2023-02-22 01:24:44.853][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.854][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:44.856][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.857][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.859][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.860][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.862][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-22 01:24:44.863][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:44.865][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.866][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-22 01:24:44.868][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:44.869][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.871][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.872][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.874][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:44.875][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.877][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.878][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:44.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.883][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.884][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.886][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:44.887][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:44.888][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.890][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.892][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-22 01:24:44.894][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.896][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-22 01:24:44.898][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.899][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:44.900][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.902][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.903][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.905][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.906][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-22 01:24:44.908][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:44.910][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.911][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-22 01:24:44.913][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:44.914][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.916][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:44.933][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.935][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-22 01:24:44.937][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.938][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.940][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:44.941][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:44.942][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:44.944][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:44.945][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.947][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:44.948][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:44.949][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:44.951][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:44.953][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:44.954][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:44.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:44.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:44.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:44.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:44.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.047][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.DEBUG[2023-02-22 01:24:45.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.061][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-22 01:24:45.063][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-22 01:24:45.065][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-22 01:24:45.067][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-22 01:24:45.069][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-22 01:24:45.071][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-22 01:24:45.081][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-22 01:24:45.083][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-22 01:24:45.085][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-22 01:24:45.087][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-22 01:24:45.089][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-22 01:24:45.091][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-22 01:24:45.093][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-22 01:24:45.095][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-22 01:24:45.097][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-22 01:24:45.099][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-22 01:24:45.100][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-22 01:24:45.102][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-22 01:24:45.104][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-22 01:24:45.106][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-22 01:24:45.108][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-22 01:24:45.110][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-22 01:24:45.112][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-22 01:24:45.114][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-22 01:24:45.116][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-22 01:24:45.120][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-22 01:24:45.122][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-22 01:24:45.124][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-22 01:24:45.126][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-22 01:24:45.128][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-22 01:24:45.130][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-22 01:24:45.132][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-22 01:24:45.134][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-22 01:24:45.136][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-22 01:24:45.138][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-22 01:24:45.140][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-22 01:24:45.141][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-22 01:24:45.143][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-22 01:24:45.145][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-22 01:24:45.147][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-22 01:24:45.149][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-22 01:24:45.151][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-22 01:24:45.153][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-22 01:24:45.155][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-22 01:24:45.157][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-22 01:24:45.159][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-22 01:24:45.161][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-22 01:24:45.163][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-22 01:24:45.165][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-22 01:24:45.167][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-22 01:24:45.169][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-22 01:24:45.171][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-22 01:24:45.173][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-22 01:24:45.175][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-22 01:24:45.177][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-22 01:24:45.179][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-22 01:24:45.181][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-22 01:24:45.183][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-22 01:24:45.185][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-22 01:24:45.187][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-22 01:24:45.189][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-22 01:24:45.191][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-22 01:24:45.193][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-22 01:24:45.195][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-22 01:24:45.197][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-22 01:24:45.199][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-22 01:24:45.201][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-22 01:24:45.202][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-22 01:24:45.204][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-22 01:24:45.206][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-22 01:24:45.208][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-22 01:24:45.210][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-22 01:24:45.212][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-22 01:24:45.214][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-22 01:24:45.216][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-22 01:24:45.227][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-22 01:24:45.229][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-22 01:24:45.231][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-22 01:24:45.233][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-22 01:24:45.235][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-22 01:24:45.237][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-22 01:24:45.239][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-22 01:24:45.241][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-22 01:24:45.243][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-22 01:24:45.245][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-22 01:24:45.247][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-22 01:24:45.248][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.250][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.260][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[2023-02-22 01:24:45.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.400][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[2023-02-22 01:24:45.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-22 01:24:45.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:45.411][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-22 01:24:45.413][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:45.416][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:45.417][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-22 01:24:45.419][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:45.420][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-22 01:24:45.422][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:45.423][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-22 01:24:45.424][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:45.426][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-22 01:24:45.427][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-22 01:24:45.429][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-22 01:24:45.430][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:45.431][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-22 01:24:45.433][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-22 01:24:45.434][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-22 01:24:45.436][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-22 01:24:45.437][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-22 01:24:45.437][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-22 01:24:45.439][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-22 01:24:45.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:45.441][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:45.443][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-22 01:24:45.444][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-22 01:24:45.445][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-22 01:24:45.447][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-22 01:24:45.448][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-22 01:24:45.448][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-22 01:24:45.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:45.451][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:45.452][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-22 01:24:45.454][self$setPropertyValue]
biodb.DEBUG[2023-02-22 01:24:45.456][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-22 01:24:45.458][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-22 01:24:45.460][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-22 01:24:45.462][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-22 01:24:45.467][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:45.468][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-22 01:24:45.470][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:45.472][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:45.474][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:45.475][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:45.477][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-22 01:24:45.478][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-22 01:24:45.480][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-22 01:24:45.480][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-22 01:24:45.481][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-22 01:24:45.482][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-22 01:24:45.484][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-22 01:24:45.485][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-22 01:24:45.487][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-22 01:24:45.489][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:45.490][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:45.492][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:45.494][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-22 01:24:45.495][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-22 01:24:45.497][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-22 01:24:45.499][biodb::testThat]
biodb.INFO [2023-02-22 01:24:45.500][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2023-02-22 01:24:45.501][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-22 01:24:45.503][biodb::testThat]
biodb.DEBUG[2023-02-22 01:24:45.527][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-22 01:24:45.528][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-02-22 01:24:45.530][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-02-22 01:24:45.534][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:45.536][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:45.538][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:45.540][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:45.541][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:45.547][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:45.548][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:45.550][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:45.551][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:45.552][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-22 01:24:45.554][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-02-22 01:24:45.556][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-02-22 01:24:45.558][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-22 01:24:45.560][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:45.562][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-22 01:24:45.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-02-22 01:24:45.567][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-22 01:24:45.569][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-02-22 01:24:45.571][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-22 01:24:45.592][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-22 01:24:45.593][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-22 01:24:45.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:45.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:45.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:45.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:45.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:45.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:45.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-22 01:24:45.615][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:45.617][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:45.618][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.619][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:45.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:45.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.630][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.632][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.633][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.635][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.637][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.646][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.648][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.649][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.650][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.652][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.665][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.666][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.692][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.694][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.696][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.697][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.709][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:45.710][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:45.712][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.713][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.715][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:45.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:45.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.726][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:45.727][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:45.729][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.730][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.732][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:45.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:45.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.742][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:45.743][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:45.745][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.746][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:45.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:45.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.757][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:45.759][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:45.760][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.762][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.764][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:45.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:45.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.773][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:45.774][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:45.776][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.777][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.779][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:45.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:45.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.788][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:45.790][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:45.791][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.792][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.795][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:45.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:45.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.804][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:45.805][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:45.807][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.808][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:45.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:45.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.820][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:45.821][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:45.822][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.824][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:45.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:45.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.835][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:45.837][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:45.838][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.840][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.841][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:45.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.860][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:45.862][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:45.863][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.864][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.866][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:45.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:45.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.876][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:45.877][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:45.879][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.880][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:45.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:45.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.891][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:45.893][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:45.894][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.896][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.898][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:45.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:45.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:45.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:45.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:45.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:45.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:45.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:45.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.934][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.939][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.945][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:45.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.951][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.962][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:45.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:45.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:45.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:45.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:45.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.001][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.007][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.028][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.034][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.039][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.051][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.056][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.062][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.068][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.074][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.133][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.139][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.145][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.169][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.175][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.196][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.208][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.214][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:46.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:46.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.220][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:46.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:46.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.226][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:46.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:46.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.232][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:46.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.249][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.255][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:46.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.283][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.299][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:46.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:46.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.305][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:46.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:46.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.317][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:46.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:46.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:46.372][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-22 01:24:46.374][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.379][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.385][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.391][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:46.397][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-22 01:24:46.398][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-22 01:24:46.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:46.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:46.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:46.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:46.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:46.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:46.414][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[2023-02-22 01:24:46.416][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-02-22 01:24:46.417][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-22 01:24:46.419][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:46.421][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-22 01:24:46.424][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-02-22 01:24:46.426][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-22 01:24:46.428][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-22 01:24:46.430][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-22 01:24:46.451][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-22 01:24:46.453][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-22 01:24:46.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:46.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:46.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:46.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:46.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:46.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:46.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-22 01:24:46.474][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.475][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.477][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.478][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.489][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.491][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.492][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.494][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.496][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.515][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.516][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.518][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.519][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.521][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.531][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.534][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.535][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.536][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.548][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.549][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.551][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.552][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.564][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.565][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.567][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.568][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.570][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.580][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.581][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.583][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.584][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.586][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:46.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.596][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.597][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.599][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.600][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.602][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.612][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.613][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.615][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.616][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.618][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.628][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.629][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.631][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.632][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.644][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.645][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.648][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.663][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.664][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.685][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.688][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.690][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:46.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.702][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.703][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.705][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.706][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.708][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:46.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:46.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.718][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.719][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.721][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.722][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.724][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.735][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:46.737][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:46.738][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.739][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.741][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:46.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.751][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:46.753][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.754][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.756][ef$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.758][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-22 01:24:46.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:46.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:46.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.786][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.791][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.797][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-22 01:24:46.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.803][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.809][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.815][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-22 01:24:46.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-22 01:24:46.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-22 01:24:46.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.879][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-22 01:24:46.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.885][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.891][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.897][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-22 01:24:46.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.903][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.909][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.915][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-22 01:24:46.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.921][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.927][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.932][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:46.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:46.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-22 01:24:46.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-22 01:24:46.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-22 01:24:46.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-22 01:24:46.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:46.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:46.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:46.994][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:46.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.004][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:47.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:47.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.029][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:47.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-22 01:24:47.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:47.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:47.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:47.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:47.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-22 01:24:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.075][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:47.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:47.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.081][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:47.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:47.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.087][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:47.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-22 01:24:47.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.093][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:47.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:47.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:47.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.105][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-22 01:24:47.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-22 01:24:47.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.111][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:47.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.136][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-22 01:24:47.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-22 01:24:47.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-22 01:24:47.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-22 01:24:47.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.183][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:47.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:47.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.189][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:47.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:47.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:47.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:47.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.210][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:47.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-22 01:24:47.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:47.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:47.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:47.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:47.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:47.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:47.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:47.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:47.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:47.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-22 01:24:47.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-22 01:24:47.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:47.255][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-02-22 01:24:47.257][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.262][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.268][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.274][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:47.280][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-22 01:24:47.281][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:47.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:47.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:47.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:47.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:47.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:47.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:47.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:47.358][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-22 01:24:47.360][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-02-22 01:24:47.361][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-02-22 01:24:47.364][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:47.366][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:47.368][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:47.370][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:47.371][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:47.377][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:47.378][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:47.380][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:47.381][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:47.383][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-22 01:24:47.384][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-22 01:24:47.387][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.393][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.399][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.416][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.422][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:47.428][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-22 01:24:47.429][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-22 01:24:47.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:47.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:47.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:47.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:47.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:47.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:47.445][FUN] Functions in observer BiodbConfig: [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[2023-02-22 01:24:47.447][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.453][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.459][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.464][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.476][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.481][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:47.487][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-02-22 01:24:47.489][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-22 01:24:47.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:47.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:47.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:47.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:47.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:47.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:47.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-22 01:24:47.530][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-22 01:24:47.532][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-02-22 01:24:47.533][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-02-22 01:24:47.535][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:47.537][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:47.539][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-22 01:24:47.542][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-22 01:24:47.543][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-22 01:24:47.549][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-22 01:24:47.550][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-22 01:24:47.552][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-22 01:24:47.553][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-22 01:24:47.555][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-22 01:24:47.556][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-22 01:24:47.559][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.565][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.571][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.576][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.582][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.588][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.594][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:47.600][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-02-22 01:24:47.601][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-02-22 01:24:47.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:47.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:47.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:47.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:47.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:47.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:47.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-22 01:24:47.619][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.624][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.630][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.636][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.642][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.648][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-22 01:24:47.653][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-22 01:24:47.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-22 01:24:47.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-22 01:24:47.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-22 01:24:47.659][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-22 01:24:47.661][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-22 01:24:47.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-22 01:24:47.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:47.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:47.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:47.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:47.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:47.687][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.INFO [2023-02-22 01:24:47.692][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-22 01:24:47.693][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-22 01:24:47.695][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-22 01:24:47.696][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-22 01:24:47.698][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-22 01:24:47.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-22 01:24:47.700][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-22 01:24:47.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-22 01:24:47.703][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-22 01:24:47.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 186 ]
>
> proc.time()
user system elapsed
13.010 0.444 19.008
biodbHmdb.Rcheck/biodbHmdb-Ex.timings
| name | user | system | elapsed | |
| HmdbMetabolitesConn | 2.182 | 0.179 | 2.363 | |
| HmdbMetabolitesEntry | 0.424 | 0.013 | 0.438 | |