| Back to Build/check report for BioC 3.17 |
|
This page was generated on 2023-02-03 02:35:45 -0000 (Fri, 03 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" | 4039 |
| 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: 2023-02-02 01:58:10 -0000 (Thu, 02 Feb 2023) |
| EndedAt: 2023-02-02 01:59:34 -0000 (Thu, 02 Feb 2023) |
| EllapsedTime: 84.1 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 [2023-02-02 01:59:05.630][biodb::testContext]
biodb.INFO [2023-02-02 01:59:05.633][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:05.634][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-02-02 01:59:05.635][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:05.637][biodb::testContext]
biodb.INFO [2023-02-02 01:59:05.639][biodb::testThat]
biodb.INFO [2023-02-02 01:59:05.640][biodb::testThat] Running test function test_extractXmlEntries (" extractXmlEntries() works fine. ").
biodb.INFO [2023-02-02 01:59:05.642][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:05.643][biodb::testThat]
biodb.INFO [2023-02-02 01:59:05.873][biodb::testContext]
biodb.INFO [2023-02-02 01:59:05.874][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:05.892][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-02-02 01:59:05.893][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:05.894][biodb::testContext]
biodb.INFO [2023-02-02 01:59:05.931][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-02 01:59:05.934][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-02 01:59:05.951][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:05.953][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-02 01:59:05.954][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-02 01:59:05.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:05.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:05.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:05.976][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-02 01:59:06.022][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-02 01:59:06.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.028][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-02 01:59:06.029][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-02 01:59:06.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.051][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-02 01:59:06.052][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-02 01:59:06.053][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-02 01:59:06.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.067][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-02 01:59:06.069][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-02 01:59:06.070][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-02 01:59:06.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.076][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-02 01:59:06.077][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-02 01:59:06.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.099][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-02 01:59:06.101][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-02 01:59:06.102][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-02 01:59:06.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.108][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-02 01:59:06.109][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-02 01:59:06.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.114][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-02 01:59:06.132][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-02 01:59:06.134][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-02 01:59:06.135][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.138][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-02 01:59:06.140][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-02 01:59:06.141][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-02 01:59:06.169][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-02 01:59:06.171][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-02 01:59:06.172][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-02 01:59:06.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.177][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-02 01:59:06.179][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-02 01:59:06.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.184][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-02 01:59:06.186][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-02 01:59:06.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.192][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-02 01:59:06.194][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-02 01:59:06.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.199][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-02 01:59:06.200][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-02 01:59:06.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.205][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-02 01:59:06.207][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-02 01:59:06.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.212][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-02 01:59:06.214][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-02 01:59:06.233][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-02 01:59:06.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.238][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-02 01:59:06.240][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-02 01:59:06.241][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-02 01:59:06.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.266][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-02 01:59:06.356][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.395][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-02 01:59:06.397][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.399][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:06.400][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.402][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.403][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.404][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.406][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-02 01:59:06.407][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:06.409][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.410][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-02 01:59:06.411][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:06.413][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.414][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.416][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:06.416][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-02 01:59:06.416][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-02 01:59:06.416][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-02 01:59:06.416][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-02 01:59:06.417][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:06.418][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.420][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.421][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:06.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.424][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.425][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.426][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.428][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:06.429][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:06.430][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.432][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.433][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-02 01:59:06.436][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.437][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-02 01:59:06.439][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.440][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:06.442][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.443][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.445][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.446][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.447][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-02 01:59:06.449][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:06.450][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.452][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-02 01:59:06.453][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:06.455][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.456][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.458][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:06.458][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-02 01:59:06.458][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-02 01:59:06.458][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-02 01:59:06.458][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-02 01:59:06.459][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:06.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.463][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:06.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.466][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.467][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.469][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.470][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:06.471][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:06.473][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.474][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.476][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-02 01:59:06.478][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.480][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-02 01:59:06.481][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.483][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:06.484][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.486][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.487][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.489][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.490][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-02 01:59:06.492][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:06.493][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.495][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-02 01:59:06.496][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:06.497][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.499][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.500][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.510][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:06.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.514][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:06.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.518][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.520][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.521][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:06.522][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:06.524][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.525][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.527][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-02 01:59:06.529][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.531][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-02 01:59:06.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.534][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:06.535][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.537][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.538][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.540][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.541][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-02 01:59:06.542][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:06.544][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.545][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-02 01:59:06.547][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:06.548][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.549][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:06.551][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.552][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:06.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.556][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:06.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:06.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:06.560][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:06.562][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.563][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:06.564][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:06.566][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:06.567][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:06.573][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:06.575][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.588][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[2023-02-02 01:59:06.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.607][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[2023-02-02 01:59:06.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.645][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[2023-02-02 01:59:06.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.684][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-02 01:59:06.691][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-02 01:59:06.693][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-02 01:59:06.695][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-02 01:59:06.697][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-02 01:59:06.699][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-02 01:59:06.701][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-02 01:59:06.703][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-02 01:59:06.705][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-02 01:59:06.707][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-02 01:59:06.709][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-02 01:59:06.711][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-02 01:59:06.713][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-02 01:59:06.715][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-02 01:59:06.717][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-02 01:59:06.719][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-02 01:59:06.721][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-02 01:59:06.723][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-02 01:59:06.725][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-02 01:59:06.727][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-02 01:59:06.729][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-02 01:59:06.731][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-02 01:59:06.733][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-02 01:59:06.735][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-02 01:59:06.737][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-02 01:59:06.739][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-02 01:59:06.741][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-02 01:59:06.743][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-02 01:59:06.745][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-02 01:59:06.747][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-02 01:59:06.749][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-02 01:59:06.751][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-02 01:59:06.762][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-02 01:59:06.764][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-02 01:59:06.766][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-02 01:59:06.768][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-02 01:59:06.770][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-02 01:59:06.772][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-02 01:59:06.774][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-02 01:59:06.776][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-02 01:59:06.778][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-02 01:59:06.780][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-02 01:59:06.782][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-02 01:59:06.784][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-02 01:59:06.786][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-02 01:59:06.788][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-02 01:59:06.790][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-02 01:59:06.792][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-02 01:59:06.794][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-02 01:59:06.796][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-02 01:59:06.798][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-02 01:59:06.800][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-02 01:59:06.802][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-02 01:59:06.804][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-02 01:59:06.806][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-02 01:59:06.808][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-02 01:59:06.810][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-02 01:59:06.812][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-02 01:59:06.814][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-02 01:59:06.816][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-02 01:59:06.818][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-02 01:59:06.820][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-02 01:59:06.822][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-02 01:59:06.824][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-02 01:59:06.826][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-02 01:59:06.828][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-02 01:59:06.830][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-02 01:59:06.832][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-02 01:59:06.834][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-02 01:59:06.836][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-02 01:59:06.838][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-02 01:59:06.840][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-02 01:59:06.842][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-02 01:59:06.844][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-02 01:59:06.846][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-02 01:59:06.848][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-02 01:59:06.850][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-02 01:59:06.852][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-02 01:59:06.854][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-02 01:59:06.856][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-02 01:59:06.858][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-02 01:59:06.860][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-02 01:59:06.862][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-02 01:59:06.870][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-02 01:59:06.872][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-02 01:59:06.876][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:06.878][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.880][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.904][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[2023-02-02 01:59:06.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.955][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[2023-02-02 01:59:06.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:06.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:06.980][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[2023-02-02 01:59:06.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:06.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:06.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:06.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:06.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:06.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:07.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:07.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:07.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:07.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:07.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:07.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:07.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:07.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:07.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:07.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:07.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:07.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:07.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:07.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:07.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:07.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:07.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:07.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:07.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:07.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:07.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:07.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:07.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:07.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:07.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:07.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:07.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:07.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:07.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:07.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:07.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:07.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:07.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:07.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:07.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:07.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:07.074][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-02 01:59:07.088][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:07.091][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:07.092][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-02 01:59:07.094][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:07.095][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:07.096][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:07.098][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-02 01:59:07.099][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:07.100][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:07.102][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-02 01:59:07.103][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:07.105][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:07.106][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-02 01:59:07.107][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-02 01:59:07.109][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-02 01:59:07.110][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:07.112][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:07.112][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-02 01:59:07.113][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-02 01:59:07.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:07.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:07.117][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:07.118][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:07.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:07.121][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:07.122][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-02 01:59:07.122][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-02 01:59:07.124][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:07.125][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:07.126][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:07.128][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:07.136][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-02 01:59:07.138][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-02 01:59:07.140][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-02 01:59:07.142][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-02 01:59:07.175][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:07.177][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-02 01:59:07.183][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:07.188][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-02 01:59:07.194][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:07.195][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:07.197][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-02 01:59:07.199][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-02 01:59:07.200][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-02 01:59:07.200][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-02 01:59:07.202][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:07.203][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:07.204][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-02 01:59:07.205][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-02 01:59:07.207][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:07.231][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-02 01:59:07.233][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:07.234][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:07.236][private$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[2023-02-02 01:59:07.238][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:07.239][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-02 01:59:07.260][biodb::testThat]
biodb.INFO [2023-02-02 01:59:07.261][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2023-02-02 01:59:07.263][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:07.264][biodb::testThat]
biodb.TRACE[2023-02-02 01:59:07.271][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[2023-02-02 01:59:07.288][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-02 01:59:07.293][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-02 01:59:07.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:07.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:07.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:07.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:07.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:07.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:07.319][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.TRACE[2023-02-02 01:59:07.335][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:07.336][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:07.338][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.339][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:07.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:07.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.368][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.370][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.371][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.372][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.411][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.421][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.422][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.424][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.425][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.427][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.437][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.439][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.440][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.441][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.453][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.454][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.457][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.469][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.472][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.473][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.475][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.484][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.486][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.487][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.489][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.491][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.500][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.512][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.513][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.515][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.517][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.526][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.528][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.529][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.531][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.533][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.543][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:07.544][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:07.546][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.547][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.549][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:07.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:07.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.558][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:07.560][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:07.561][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.562][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:07.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:07.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.574][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.576][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.577][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.579][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.590][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.592][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.593][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.594][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.606][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:07.608][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:07.609][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.610][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.612][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:07.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:07.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.622][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:07.623][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:07.625][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.626][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.628][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:07.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:07.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.637][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:07.638][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:07.640][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.641][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.643][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:07.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:07.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.652][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:07.654][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.655][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.657][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.659][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:07.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:07.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:07.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:07.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:07.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:07.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:07.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.741][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.747][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.753][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:07.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.764][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.769][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:07.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:07.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:07.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.814][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.826][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.831][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:07.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.848][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.853][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:07.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.859][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:07.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:07.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.864][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:07.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:07.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.870][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:07.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:07.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.876][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:07.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:07.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.881][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:07.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:07.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:07.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:07.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:07.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:07.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:07.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:07.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:07.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:07.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:07.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.935][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.946][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:07.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:07.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:07.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:07.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.975][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:07.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:07.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:07.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:07.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.987][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.992][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:07.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:07.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:07.998][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.005][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.011][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.017][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.022][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:08.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.045][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:08.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.120][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.127][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.139][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:08.185][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-02 01:59:08.192][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-02 01:59:08.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-02 01:59:08.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.198][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-02 01:59:08.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-02 01:59:08.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.203][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-02 01:59:08.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-02 01:59:08.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.209][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-02 01:59:08.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-02 01:59:08.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.246][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.294][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.299][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.305][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:08.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.347][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.349][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.350][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.351][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:08.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:08.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.386][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.387][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.389][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.390][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.407][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.413][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.418][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.424][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.425][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.427][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.428][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.430][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:08.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.465][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.466][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:08.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.482][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.488][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.494][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.503][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.505][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:08.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.545][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.546][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.548][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.549][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:08.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:08.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.566][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:08.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:08.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.572][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:08.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:08.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.577][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:08.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:08.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.583][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:08.584][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:08.585][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.587][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.588][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:08.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:08.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.604][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:08.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:08.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:08.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:08.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.616][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:08.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:08.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.621][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:08.623][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:08.624][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.625][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:08.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:08.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.642][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.648][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.654][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.659][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.661][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.663][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.665][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:08.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.697][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.699][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.700][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.702][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:08.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.719][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.733][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.738][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.744][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.746][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.747][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.749][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.750][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:08.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.766][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.772][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.778][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.783][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.785][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.786][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.788][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.789][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.806][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.812][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.817][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.823][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.824][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.826][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.827][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.828][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:08.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.844][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.850][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.855][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.860][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.862][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.863][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.864][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:08.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:08.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:08.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:08.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:08.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:08.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:08.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.898][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:08.900][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:08.901][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.902][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:08.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:08.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.919][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.943][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.944][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.945][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.947][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:08.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.964][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.970][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.976][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.982][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.983][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.985][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.986][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:08.988][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:08.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:08.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.004][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:09.006][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:09.007][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.008][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.016][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.018][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.019][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.020][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.028][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.030][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.031][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.032][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.040][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.043][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.045][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.053][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.054][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.056][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.057][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.065][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.066][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.068][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.069][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.077][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.079][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.081][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.082][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.090][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.092][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.093][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.094][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.102][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:09.104][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:09.105][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.107][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.115][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:09.116][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:09.118][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.119][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.135][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:09.137][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:09.138][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.139][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.147][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.149][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.150][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.152][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.160][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.162][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.163][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.165][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.173][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.175][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.177][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.178][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.186][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:09.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:09.189][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.191][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.199][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.201][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.202][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.203][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:09.213][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:09.214][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.215][ef$get] fields variable is a list.
biodb.INFO [2023-02-02 01:59:09.224][biodb::testThat]
biodb.INFO [2023-02-02 01:59:09.226][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-02-02 01:59:09.227][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:09.228][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:09.248][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-02-02 01:59:09.258][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2023-02-02 01:59:09.264][self$getFolderPath] Create cache folder "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-02-02 01:59:09.266][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-02-02 01:59:09.267][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-02-02 01:59:09.269][private$doDownload] Downloading HMDB metabolite database at "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-02-02 01:59:09.271][cch$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-02-02 01:59:09.273][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-02-02 01:59:09.276][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-02-02 01:59:09.278][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-02-02 01:59:09.279][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-02-02 01:59:09.282][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker1de53560b2b3c3marker".
biodb.TRACE[2023-02-02 01:59:09.284][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-02-02 01:59:09.285][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-02-02 01:59:09.287][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-02-02 01:59:09.289][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-02-02 01:59:09.290][private$doExtractDownload] Extracting content of downloaded',
' HMDB metabolite database...
biodb.DEBUG[2023-02-02 01:59:09.292][self$getDownloadPath] Download path of hmdb.metabolites is "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-02-02 01:59:09.294][private$doExtractDownload] Unzipping /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /home/biocbuild/.cache/R/biodb/tmp...
biodb.DEBUG[2023-02-02 01:59:09.297][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-02-02 01:59:09.299][private$findXmlDatabaseFile] Found XML file /home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-02-02 01:59:09.300][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-02-02 01:59:09.302][private$doExtractDownload] Extract entries from XML file "/home/biocbuild/.cache/R/biodb/tmp/hmdb_two_full_entries.xml", into "/home/biocbuild/.cache/R/biodb/tmp".
biodb.TRACE[2023-02-02 01:59:09.311][self$addFilesToCache] Moving files to cache [2]: "/home/biocbuild/.cache/R/biodb/tmp/entry_1.xml, /home/biocbuild/.cache/R/biodb/tmp/entry_2.xml".
biodb.TRACE[2023-02-02 01:59:09.313][private$doAddFilesToCache] Destination files are [2]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-02 01:59:09.314][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-02-02 01:59:09.316][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-02-02 01:59:09.318][self$addFilesToCache] Moving files to cache [1]: "/home/biocbuild/.cache/R/biodb/tmp/marker1de5357faf75a3marker".
biodb.TRACE[2023-02-02 01:59:09.320][private$doAddFilesToCache] Destination files are [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-02-02 01:59:09.321][self$addFilesToCache] Done adding files.
biodb.TRACE[2023-02-02 01:59:09.323][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-02-02 01:59:09.325][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-02 01:59:09.327][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-02-02 01:59:09.329][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-02 01:59:09.397][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-02 01:59:09.399][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-02 01:59:09.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:09.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:09.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:09.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:09.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:09.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:09.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-02 01:59:09.421][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:09.422][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:09.424][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.425][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:09.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:09.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.436][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.437][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.439][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.440][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.442][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.452][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.454][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.456][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.458][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.470][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.471][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.472][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.484][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.486][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.487][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.488][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.500][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.503][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.504][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.515][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.517][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.518][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.520][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.522][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.531][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.533][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.544][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.555][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.557][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.559][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.560][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.562][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.572][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:09.573][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:09.575][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.576][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.578][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:09.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:09.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.588][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:09.589][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:09.591][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.592][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:09.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:09.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.604][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.605][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.607][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.608][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.610][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.620][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.622][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.623][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.624][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.636][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:09.638][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:09.639][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.641][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.642][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:09.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:09.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.651][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:09.653][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:09.654][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.656][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.657][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:09.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:09.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.667][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:09.668][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:09.670][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.671][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.673][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:09.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:09.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.683][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:09.684][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.685][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.687][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.689][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:09.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:09.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:09.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:09.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:09.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:09.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:09.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.716][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.722][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:09.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.733][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.747][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.753][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:09.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:09.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:09.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.798][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.803][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:09.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.809][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.814][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.820][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:09.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.826][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.832][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:09.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.843][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:09.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:09.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.849][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:09.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:09.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.854][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:09.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:09.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.860][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:09.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:09.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:09.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:09.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.871][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:09.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:09.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:09.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:09.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:09.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:09.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:09.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:09.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:09.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.911][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.917][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.922][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:09.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:09.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:09.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:09.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.959][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:09.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:09.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.965][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:09.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:09.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.970][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.976][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.982][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:09.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.987][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:09.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:09.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.993][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:09.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:09.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:10.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.004][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:10.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.026][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:10.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:10.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.068][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:10.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:10.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.074][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:10.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:10.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:10.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:10.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.085][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:10.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:10.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:10.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:10.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:10.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:10.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:10.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:10.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:10.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:10.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.138][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-02 01:59:10.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-02-02 01:59:10.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-02-02 01:59:10.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-02-02 01:59:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-02-02 01:59:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-02-02 01:59:10.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-02-02 01:59:10.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-02 01:59:10.164][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.165][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2023-02-02 01:59:10.167][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:10.168][biodb::testThat]
biodb.TRACE[2023-02-02 01:59:10.172][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.174][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.175][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.176][ef$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.178][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-02-02 01:59:10.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.240][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-02-02 01:59:10.252][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-02-02 01:59:10.254][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-02 01:59:10.255][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-02 01:59:10.257][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.259][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.261][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:10.263][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.264][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:10.270][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:10.271][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:10.273][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:10.274][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:10.276][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-02 01:59:10.277][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-02 01:59:10.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.302][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-02 01:59:10.304][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-02 01:59:10.305][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-02-02 01:59:10.334][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.336][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.337][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.338][ef$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.340][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-02-02 01:59:10.360][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.366][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.372][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.379][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[2023-02-02 01:59:10.467][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-02 01:59:10.468][private$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[2023-02-02 01:59:10.469][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-02-02 01:59:10.498][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.500][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.502][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:10.504][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.505][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:10.532][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:10.533][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:10.535][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:10.536][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:10.537][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-02 01:59:10.539][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-02 01:59:10.541][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.547][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.552][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.558][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:10.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:10.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.564][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-02 01:59:10.565][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-02 01:59:10.566][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-02-02 01:59:10.588][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.590][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2023-02-02 01:59:10.591][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:10.592][biodb::testThat]
biodb.TRACE[2023-02-02 01:59:10.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.658][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-02-02 01:59:10.668][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-02 01:59:10.670][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-02-02 01:59:10.672][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.674][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.676][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:10.678][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:10.680][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:10.685][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:10.687][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:10.688][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:10.690][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:10.691][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-02 01:59:10.692][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-02 01:59:10.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:10.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:10.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:10.718][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-02 01:59:10.719][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-02-02 01:59:10.740][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.742][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2023-02-02 01:59:10.743][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:10.744][biodb::testThat]
biodb.TRACE[2023-02-02 01:59:10.797][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.802][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.808][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-02 01:59:10.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-02 01:59:10.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.813][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-02 01:59:10.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-02 01:59:10.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-02-02 01:59:10.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.901][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-02-02 01:59:10.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-02-02 01:59:10.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:10.906][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-02-02 01:59:10.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-02-02 01:59:10.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:10.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-02 01:59:10.916][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.918][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-02-02 01:59:10.919][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:10.920][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.927][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.928][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-02-02 01:59:10.930][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:10.931][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.938][biodb::testThat]
biodb.INFO [2023-02-02 01:59:10.939][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2023-02-02 01:59:10.941][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:10.942][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:10.947][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-02-02 01:59:14.201][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-02-02 01:59:14.711][biodb::testThat]
biodb.INFO [2023-02-02 01:59:14.728][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2023-02-02 01:59:14.729][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:14.731][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:16.460][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-02-02 01:59:16.959][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:16.961][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:16.962][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:16.963][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:16.965][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:16.966][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:16.967][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:16.969][ef$get] fields variable is a list.
biodb.INFO [2023-02-02 01:59:16.970][biodb::testThat]
biodb.INFO [2023-02-02 01:59:17.017][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2023-02-02 01:59:17.018][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:17.020][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:17.023][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-02-02 01:59:17.089][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-02 01:59:17.092][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.093][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-02 01:59:17.117][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-02-02 01:59:17.119][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-02-02 01:59:17.120][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-02-02 01:59:17.122][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-02 01:59:17.124][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.153][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-02 01:59:17.155][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-02 01:59:17.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:17.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:17.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:17.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-02 01:59:17.174][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.180][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:17.219][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-02-02 01:59:17.220][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-02-02 01:59:17.241][biodb::testThat]
biodb.INFO [2023-02-02 01:59:17.242][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-02-02 01:59:17.244][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:17.245][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:17.254][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-02-02 01:59:17.256][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-02-02 01:59:17.257][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-02 01:59:17.259][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.262][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-02 01:59:17.265][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-02-02 01:59:17.267][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-02-02 01:59:17.268][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-02-02 01:59:17.270][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-02 01:59:17.272][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.303][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-02 01:59:17.305][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-02 01:59:17.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:17.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:17.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:17.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.322][FUN] Functions in observer BiodbConfig: [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[2023-02-02 01:59:17.325][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.330][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:17.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:17.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:17.369][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-02-02 01:59:17.370][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-02-02 01:59:17.372][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-02-02 01:59:17.388][biodb::testThat]
biodb.INFO [2023-02-02 01:59:17.389][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2023-02-02 01:59:17.391][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:17.392][biodb::testThat]
biodb.INFO [2023-02-02 01:59:17.419][biodb::testThat]
biodb.INFO [2023-02-02 01:59:17.420][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2023-02-02 01:59:17.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:17.423][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:17.427][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.429][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.430][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:17.432][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.434][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:17.439][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:17.441][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:17.442][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:17.468][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-02-02 01:59:17.477][biodb::testThat]
biodb.INFO [2023-02-02 01:59:17.479][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2023-02-02 01:59:17.480][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:17.481][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:17.500][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.502][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.504][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:17.506][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:17.508][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:17.513][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:17.515][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:17.516][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:17.518][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-02-02 01:59:17.534][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:17.536][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:17.537][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.538][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:17.540][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:17.541][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:17.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:17.544][ef$get] fields variable is a list.
biodb.INFO [2023-02-02 01:59:17.545][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-02 01:59:17.547][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-02 01:59:17.558][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-02 01:59:17.559][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-02 01:59:17.560][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:17.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:17.563][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.565][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-02 01:59:17.571][biodb::testContext]
biodb.INFO [2023-02-02 01:59:17.573][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:17.574][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-02-02 01:59:17.575][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:17.577][biodb::testContext]
biodb.INFO [2023-02-02 01:59:17.585][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-02 01:59:17.587][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-02 01:59:17.592][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:17.593][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-02 01:59:17.594][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-02 01:59:17.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.600][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-02 01:59:17.601][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-02 01:59:17.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.607][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-02 01:59:17.609][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-02 01:59:17.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.614][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-02 01:59:17.616][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-02 01:59:17.617][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-02 01:59:17.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.622][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-02 01:59:17.624][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-02 01:59:17.625][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-02 01:59:17.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.630][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-02 01:59:17.632][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-02 01:59:17.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.646][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-02 01:59:17.647][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-02 01:59:17.649][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-02 01:59:17.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.654][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-02 01:59:17.655][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-02 01:59:17.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.661][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-02 01:59:17.662][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-02 01:59:17.663][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-02 01:59:17.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.669][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-02 01:59:17.670][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-02 01:59:17.671][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-02 01:59:17.673][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-02 01:59:17.674][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-02 01:59:17.676][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-02 01:59:17.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.679][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[2023-02-02 01:59:17.681][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-02 01:59:17.682][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-02 01:59:17.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.688][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-02 01:59:17.689][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-02 01:59:17.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.694][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-02 01:59:17.696][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-02 01:59:17.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.701][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-02 01:59:17.702][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-02 01:59:17.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.707][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-02 01:59:17.709][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-02 01:59:17.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.714][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-02 01:59:17.715][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-02 01:59:17.719][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-02 01:59:17.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.725][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-02 01:59:17.726][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-02 01:59:17.728][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-02 01:59:17.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.733][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-02 01:59:17.736][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.737][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-02-02 01:59:17.739][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.740][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:17.742][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.743][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.745][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.746][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.748][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-02 01:59:17.749][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:17.751][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.752][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-02 01:59:17.754][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:17.755][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.757][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.758][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:17.758][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-02 01:59:17.758][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-02 01:59:17.758][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-02 01:59:17.758][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-02 01:59:17.760][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:17.761][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.762][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.764][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:17.765][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.767][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.768][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.770][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.771][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:17.772][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:17.774][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.775][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.777][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-02 01:59:17.780][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.781][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-02 01:59:17.783][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.785][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:17.786][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.787][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.797][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.798][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.800][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-02 01:59:17.801][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:17.803][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.804][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-02 01:59:17.806][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:17.807][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.808][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.809][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:17.809][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-02 01:59:17.809][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-02 01:59:17.809][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-02 01:59:17.809][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-02 01:59:17.811][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:17.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.815][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:17.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.818][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.820][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.821][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:17.822][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:17.824][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.825][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.827][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-02 01:59:17.829][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.830][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-02-02 01:59:17.832][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.833][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:17.834][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.836][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.837][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.838][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.840][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-02 01:59:17.841][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:17.842][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.844][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-02 01:59:17.845][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:17.846][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.848][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.849][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.851][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:17.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.854][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:17.856][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.857][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.858][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.860][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.861][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:17.862][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:17.864][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.865][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.866][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-02 01:59:17.869][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.870][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-02 01:59:17.872][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.873][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:17.874][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.876][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.877][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.878][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.880][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-02 01:59:17.881][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:17.882][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.884][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-02 01:59:17.885][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:17.886][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.888][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:17.889][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.890][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:17.892][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.894][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:17.896][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:17.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:17.898][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:17.900][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.901][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:17.902][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:17.904][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:17.905][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:17.907][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:17.908][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.980][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[2023-02-02 01:59:17.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.986][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[2023-02-02 01:59:17.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.992][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[2023-02-02 01:59:17.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:17.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:17.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:17.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:17.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:17.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.005][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[2023-02-02 01:59:18.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.011][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[2023-02-02 01:59:18.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.017][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[2023-02-02 01:59:18.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.023][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[2023-02-02 01:59:18.024][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-02 01:59:18.026][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-02 01:59:18.028][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-02 01:59:18.030][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-02 01:59:18.032][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-02 01:59:18.034][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-02 01:59:18.036][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-02 01:59:18.038][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-02 01:59:18.040][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-02 01:59:18.042][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-02 01:59:18.044][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-02 01:59:18.046][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-02 01:59:18.048][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-02 01:59:18.050][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-02 01:59:18.052][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-02 01:59:18.054][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-02 01:59:18.055][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-02 01:59:18.057][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-02 01:59:18.059][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-02 01:59:18.061][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-02 01:59:18.063][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-02 01:59:18.065][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-02 01:59:18.067][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-02 01:59:18.069][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-02 01:59:18.071][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-02 01:59:18.073][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-02 01:59:18.075][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-02 01:59:18.077][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-02 01:59:18.079][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-02 01:59:18.090][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-02 01:59:18.092][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-02 01:59:18.094][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-02 01:59:18.096][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-02 01:59:18.098][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-02 01:59:18.099][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-02 01:59:18.101][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-02 01:59:18.103][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-02 01:59:18.105][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-02 01:59:18.107][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-02 01:59:18.109][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-02 01:59:18.111][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-02 01:59:18.113][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-02 01:59:18.115][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-02 01:59:18.117][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-02 01:59:18.119][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-02 01:59:18.121][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-02 01:59:18.123][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-02 01:59:18.125][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-02 01:59:18.127][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-02 01:59:18.129][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-02 01:59:18.131][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-02 01:59:18.133][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-02 01:59:18.135][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-02 01:59:18.137][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-02 01:59:18.139][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-02 01:59:18.140][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-02 01:59:18.142][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-02 01:59:18.144][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-02 01:59:18.146][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-02 01:59:18.148][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-02 01:59:18.150][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-02 01:59:18.152][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-02 01:59:18.154][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-02 01:59:18.156][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-02 01:59:18.158][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-02 01:59:18.160][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-02 01:59:18.162][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-02 01:59:18.164][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-02 01:59:18.166][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-02 01:59:18.168][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-02 01:59:18.170][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-02 01:59:18.172][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-02 01:59:18.174][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-02 01:59:18.176][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-02 01:59:18.178][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-02 01:59:18.180][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-02 01:59:18.182][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-02 01:59:18.184][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-02 01:59:18.186][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-02 01:59:18.188][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-02 01:59:18.190][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-02 01:59:18.192][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-02 01:59:18.195][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-02 01:59:18.197][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-02 01:59:18.199][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-02 01:59:18.200][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:18.202][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.204][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.214][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[2023-02-02 01:59:18.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.274][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[2023-02-02 01:59:18.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.283][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[2023-02-02 01:59:18.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:18.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:18.362][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-02 01:59:18.364][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:18.367][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:18.368][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-02 01:59:18.378][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:18.380][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:18.381][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:18.383][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-02 01:59:18.384][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:18.386][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:18.387][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-02 01:59:18.388][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:18.390][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:18.391][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-02 01:59:18.392][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-02 01:59:18.394][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-02 01:59:18.395][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:18.396][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:18.396][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-02 01:59:18.398][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-02 01:59:18.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:18.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:18.402][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:18.403][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:18.404][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:18.406][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:18.407][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-02 01:59:18.407][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-02 01:59:18.409][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:18.410][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:18.412][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:18.413][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:18.415][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-02 01:59:18.417][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-02 01:59:18.419][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-02 01:59:18.422][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-02 01:59:18.426][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:18.427][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-02 01:59:18.429][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:18.431][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-02 01:59:18.432][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:18.434][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:18.435][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-02 01:59:18.437][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-02 01:59:18.438][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-02 01:59:18.438][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-02 01:59:18.440][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:18.441][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:18.442][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-02 01:59:18.444][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-02 01:59:18.445][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:18.447][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-02 01:59:18.449][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:18.450][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:18.452][private$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[2023-02-02 01:59:18.454][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:18.455][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-02 01:59:18.457][biodb::testThat]
biodb.INFO [2023-02-02 01:59:18.458][biodb::testThat] Running test function test.hmdbmetabolite.nbentries (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-02-02 01:59:18.460][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:18.461][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:18.466][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:18.468][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:18.470][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:18.472][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:18.473][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:18.479][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:18.481][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:18.482][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:18.483][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:18.487][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-02-02 01:59:18.490][biodb::testThat]
biodb.INFO [2023-02-02 01:59:18.492][biodb::testThat] Running test function test.old.accession (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-02-02 01:59:18.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:18.494][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:18.497][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-02-02 01:59:18.499][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-02 01:59:18.501][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:18.503][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-02 01:59:18.506][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-02-02 01:59:18.508][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-02 01:59:18.510][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-02 01:59:18.511][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-02 01:59:18.541][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-02 01:59:18.543][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-02 01:59:18.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:18.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:18.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:18.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:18.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:18.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:18.559][FUN] Functions in observer BiodbConfig: [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[2023-02-02 01:59:18.563][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:18.565][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:18.566][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.568][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:18.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:18.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.579][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.581][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.582][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.584][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.586][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.595][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.597][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.600][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.602][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.615][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.616][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.628][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.630][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.631][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.632][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.644][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:18.646][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:18.647][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.648][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.650][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:18.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:18.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.659][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:18.661][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:18.662][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.664][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.666][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:18.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:18.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.676][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.677][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.679][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.689][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.691][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.701][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.703][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.704][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.705][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.707][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.717][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:18.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:18.720][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.722][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.724][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:18.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:18.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.734][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:18.736][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:18.737][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.739][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:18.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:18.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.751][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:18.752][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:18.754][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.755][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.758][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:18.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:18.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.768][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:18.770][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:18.771][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.772][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:18.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:18.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.784][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:18.785][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:18.787][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.788][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.790][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:18.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:18.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.799][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:18.801][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:18.802][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.804][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.806][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:18.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:18.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.815][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:18.817][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:18.818][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.820][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.822][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:18.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:18.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.831][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:18.833][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.834][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.835][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.837][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:18.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:18.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:18.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:18.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:18.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:18.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:18.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.872][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.878][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.884][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:18.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.889][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.895][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.900][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:18.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:18.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:18.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.951][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:18.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.957][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.968][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:18.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.974][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.979][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.985][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:18.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:18.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:18.998][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:19.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:19.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.005][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:19.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:19.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.011][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:19.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:19.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:19.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:19.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:19.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:19.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:19.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:19.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:19.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:19.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:19.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:19.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:19.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:19.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.066][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:19.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:19.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.071][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:19.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:19.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.077][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:19.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:19.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:19.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:19.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:19.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:19.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:19.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:19.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.105][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.116][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:19.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:19.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.121][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:19.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:19.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.127][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:19.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:19.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.132][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:19.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:19.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:19.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:19.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.153][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:19.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:19.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.159][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:19.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.181][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:19.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:19.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.210][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.215][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:19.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:19.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.224][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:19.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:19.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.230][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:19.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:19.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.242][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:19.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:19.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:19.285][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-02-02 01:59:19.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:19.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:19.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:19.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-02-02 01:59:19.315][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-02 01:59:19.317][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-02 01:59:19.319][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-02 01:59:19.320][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-02 01:59:19.321][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:19.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:19.324][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.327][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-02 01:59:19.333][biodb::testContext]
biodb.INFO [2023-02-02 01:59:19.335][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:19.336][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-02-02 01:59:19.337][biodb::testContext] ********************************************************************************
biodb.INFO [2023-02-02 01:59:19.339][biodb::testContext]
biodb.INFO [2023-02-02 01:59:19.347][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.7.0.
biodb.DEBUG[2023-02-02 01:59:19.349][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2023-02-02 01:59:19.354][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:19.355][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-02-02 01:59:19.357][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-02-02 01:59:19.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.362][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-02-02 01:59:19.363][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-02-02 01:59:19.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.368][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-02-02 01:59:19.370][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-02-02 01:59:19.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.374][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[2023-02-02 01:59:19.376][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-02-02 01:59:19.377][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-02-02 01:59:19.379][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-02-02 01:59:19.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.384][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-02-02 01:59:19.386][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-02-02 01:59:19.387][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-02-02 01:59:19.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.391][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[2023-02-02 01:59:19.392][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-02-02 01:59:19.394][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-02-02 01:59:19.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.399][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-02-02 01:59:19.401][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-02-02 01:59:19.402][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-02-02 01:59:19.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.407][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-02-02 01:59:19.409][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-02-02 01:59:19.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.414][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-02-02 01:59:19.416][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-02-02 01:59:19.417][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-02-02 01:59:19.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.422][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-02-02 01:59:19.424][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-02-02 01:59:19.425][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-02-02 01:59:19.427][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-02-02 01:59:19.428][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-02-02 01:59:19.430][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-02-02 01:59:19.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.435][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-02-02 01:59:19.436][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-02-02 01:59:19.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.450][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-02-02 01:59:19.452][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-02-02 01:59:19.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.458][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-02-02 01:59:19.459][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-02-02 01:59:19.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.465][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-02-02 01:59:19.466][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-02-02 01:59:19.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.472][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-02-02 01:59:19.473][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-02-02 01:59:19.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.479][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-02-02 01:59:19.481][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-02-02 01:59:19.485][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-02-02 01:59:19.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.491][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-02-02 01:59:19.492][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-02-02 01:59:19.494][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-02-02 01:59:19.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.500][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-02-02 01:59:19.503][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.504][self$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[2023-02-02 01:59:19.506][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.507][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:19.509][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.510][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.512][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.514][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.515][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-02 01:59:19.517][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:19.519][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.520][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-02-02 01:59:19.522][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:19.524][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.526][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.527][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:19.527][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-02 01:59:19.527][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-02 01:59:19.527][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-02 01:59:19.527][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-02 01:59:19.529][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:19.530][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.531][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.533][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:19.534][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.535][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.537][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.538][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.540][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:19.541][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:19.542][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.544][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.547][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-02-02 01:59:19.549][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.551][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-02-02 01:59:19.552][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.554][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:19.555][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.557][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.558][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.560][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.561][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-02 01:59:19.562][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:19.564][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.565][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-02-02 01:59:19.567][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:19.568][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.570][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.571][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:19.571][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-02-02 01:59:19.571][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-02-02 01:59:19.571][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-02-02 01:59:19.571][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-02-02 01:59:19.573][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:19.574][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.575][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.577][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:19.578][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.579][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.581][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.582][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.584][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:19.585][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:19.586][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.588][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.589][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-02-02 01:59:19.592][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.593][self$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[2023-02-02 01:59:19.595][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.596][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:19.597][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.599][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.609][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.611][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.612][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-02-02 01:59:19.614][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:19.615][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.616][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-02-02 01:59:19.618][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:19.619][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.620][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.622][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.623][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:19.624][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.626][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.627][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:19.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.630][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.631][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.632][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.634][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:19.635][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:19.636][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.638][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.639][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-02-02 01:59:19.642][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.643][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-02-02 01:59:19.645][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.646][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:19.648][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.649][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.650][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.652][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.653][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-02-02 01:59:19.654][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:19.656][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.657][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-02-02 01:59:19.659][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:19.660][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.661][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:19.663][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.664][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-02-02 01:59:19.665][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.668][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:19.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:19.671][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:19.672][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:19.673][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.675][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:19.676][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:19.677][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:19.678][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:19.680][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:19.681][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:19.802][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-02-02 01:59:19.804][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-02-02 01:59:19.806][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-02-02 01:59:19.808][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-02-02 01:59:19.810][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-02-02 01:59:19.812][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-02 01:59:19.814][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-02-02 01:59:19.816][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-02-02 01:59:19.818][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-02-02 01:59:19.820][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-02 01:59:19.822][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-02 01:59:19.824][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-02-02 01:59:19.826][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-02-02 01:59:19.828][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-02-02 01:59:19.830][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-02-02 01:59:19.832][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-02 01:59:19.835][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-02-02 01:59:19.837][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-02-02 01:59:19.839][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-02-02 01:59:19.841][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-02-02 01:59:19.843][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-02-02 01:59:19.845][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-02-02 01:59:19.847][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-02-02 01:59:19.849][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-02-02 01:59:19.851][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-02-02 01:59:19.853][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-02-02 01:59:19.855][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-02-02 01:59:19.857][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-02-02 01:59:19.859][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-02-02 01:59:19.861][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-02-02 01:59:19.863][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-02-02 01:59:19.865][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-02-02 01:59:19.867][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-02-02 01:59:19.869][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-02-02 01:59:19.871][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-02-02 01:59:19.873][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-02-02 01:59:19.875][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-02-02 01:59:19.877][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-02-02 01:59:19.879][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-02-02 01:59:19.881][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-02-02 01:59:19.883][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-02-02 01:59:19.886][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-02-02 01:59:19.888][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-02-02 01:59:19.898][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-02-02 01:59:19.900][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-02-02 01:59:19.903][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-02-02 01:59:19.905][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-02-02 01:59:19.907][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-02-02 01:59:19.909][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-02-02 01:59:19.912][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-02-02 01:59:19.914][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-02-02 01:59:19.916][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-02-02 01:59:19.918][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-02-02 01:59:19.921][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-02-02 01:59:19.923][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-02-02 01:59:19.925][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-02-02 01:59:19.927][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-02-02 01:59:19.929][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-02-02 01:59:19.931][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-02-02 01:59:19.933][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-02-02 01:59:19.935][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-02-02 01:59:19.937][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-02-02 01:59:19.939][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-02-02 01:59:19.941][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-02-02 01:59:19.943][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-02-02 01:59:19.945][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-02-02 01:59:19.947][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-02-02 01:59:19.949][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-02-02 01:59:19.951][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-02-02 01:59:19.953][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-02-02 01:59:19.955][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-02-02 01:59:19.957][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-02-02 01:59:19.959][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-02-02 01:59:19.961][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-02-02 01:59:19.963][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-02-02 01:59:19.965][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-02-02 01:59:19.967][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-02-02 01:59:19.969][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-02-02 01:59:19.971][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-02-02 01:59:19.974][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-02-02 01:59:19.976][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-02-02 01:59:19.978][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-02-02 01:59:19.980][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-02-02 01:59:19.982][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-02-02 01:59:19.984][initialize] This is biodb version 1.7.0.
biodb.DEBUG[2023-02-02 01:59:19.985][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-02-02 01:59:19.987][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.990][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:19.991][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[2023-02-02 01:59:19.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:19.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:19.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:19.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:19.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:19.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.053][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[2023-02-02 01:59:20.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.130][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[2023-02-02 01:59:20.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:20.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-02-02 01:59:20.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.178][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[2023-02-02 01:59:20.180][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-02-02 01:59:20.182][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:20.185][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:20.187][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-02-02 01:59:20.188][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:20.190][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-02-02 01:59:20.191][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:20.193][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-02-02 01:59:20.194][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:20.196][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-02-02 01:59:20.197][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-02-02 01:59:20.198][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-02-02 01:59:20.215][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:20.216][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-02-02 01:59:20.218][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-02-02 01:59:20.219][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-02-02 01:59:20.237][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-02-02 01:59:20.239][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-02-02 01:59:20.239][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-02-02 01:59:20.240][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-02-02 01:59:20.242][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:20.244][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:20.246][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-02-02 01:59:20.248][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-02-02 01:59:20.249][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-02-02 01:59:20.250][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-02-02 01:59:20.252][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-02 01:59:20.252][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-02-02 01:59:20.253][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:20.255][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:20.256][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-02-02 01:59:20.257][self$setPropertyValue]
biodb.DEBUG[2023-02-02 01:59:20.259][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-02-02 01:59:20.262][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-02-02 01:59:20.264][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-02-02 01:59:20.266][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-02-02 01:59:20.270][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:20.272][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-02-02 01:59:20.273][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:20.275][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-02 01:59:20.277][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:20.278][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:20.280][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-02-02 01:59:20.282][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-02-02 01:59:20.283][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-02-02 01:59:20.283][self$setPropertyValue] Setting property "urls" to "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-02-02 01:59:20.285][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-02-02 01:59:20.286][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-02-02 01:59:20.287][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-02-02 01:59:20.288][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-02-02 01:59:20.290][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-02-02 01:59:20.292][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-02 01:59:20.294][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:20.295][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:20.297][private$addConnectorRules] Create new rule for URL "/home/biocbuild/bbs-3.17-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-02-02 01:59:20.299][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-02-02 01:59:20.300][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-02-02 01:59:20.302][biodb::testThat]
biodb.INFO [2023-02-02 01:59:20.304][biodb::testThat] Running test function test.searchMultipleWordsInDescription (" We can search for multiple words inside description field. ").
biodb.INFO [2023-02-02 01:59:20.305][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-02-02 01:59:20.306][biodb::testThat]
biodb.DEBUG[2023-02-02 01:59:20.320][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-02 01:59:20.322][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-02-02 01:59:20.323][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-02-02 01:59:20.328][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:20.330][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:20.332][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:20.335][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:20.336][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:20.342][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:20.344][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:20.346][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:20.347][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:20.349][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-02 01:59:20.350][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-02-02 01:59:20.352][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-02-02 01:59:20.354][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-02 01:59:20.356][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:20.358][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-02 01:59:20.361][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-02-02 01:59:20.363][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-02 01:59:20.365][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-02-02 01:59:20.367][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-02 01:59:20.396][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-02 01:59:20.398][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-02 01:59:20.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:20.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:20.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:20.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:20.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:20.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:20.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-02 01:59:20.421][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:20.423][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:20.425][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.426][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:20.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:20.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.437][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.439][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.440][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.442][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.444][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.453][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.455][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.456][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.458][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.460][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.469][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.472][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.474][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.485][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.487][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.488][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.489][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.501][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.502][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.504][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.505][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.507][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.517][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.518][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.520][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.521][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.523][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.533][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.534][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.536][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.537][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.539][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.549][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.558][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.560][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.562][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.564][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.574][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:20.576][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:20.577][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.578][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.581][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:20.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:20.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.591][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:20.593][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:20.594][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.595][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:20.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:20.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.610][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.611][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.613][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.623][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.625][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.626][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.627][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.639][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:20.640][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:20.642][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.643][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:20.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:20.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.654][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:20.656][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:20.657][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.659][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.660][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:20.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:20.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.670][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:20.671][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:20.673][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.674][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.676][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:20.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:20.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.686][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:20.687][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.689][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.690][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.692][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:20.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:20.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:20.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:20.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:20.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:20.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:20.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.728][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.734][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.740][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:20.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.746][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.751][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.757][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:20.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:20.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:20.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.796][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.801][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.807][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:20.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.813][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.819][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.825][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:20.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.831][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.836][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:20.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:20.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:20.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.854][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:20.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:20.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.860][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:20.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:20.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.874][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:20.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:20.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.880][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:20.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:20.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.886][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:20.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:20.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:20.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:20.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:20.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:20.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:20.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:20.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:20.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.926][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.932][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.938][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:20.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:20.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:20.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:20.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:20.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:20.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:20.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:20.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.978][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.984][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.990][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:20.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:20.996][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:20.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:20.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:21.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:21.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.007][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:21.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:21.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.013][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:21.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.033][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.045][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:21.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.067][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.073][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.088][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.094][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.106][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:21.149][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-02-02 01:59:21.150][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.156][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.161][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.167][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:21.181][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-02 01:59:21.183][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-02 01:59:21.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:21.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:21.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:21.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:21.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:21.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:21.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:21.201][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-02-02 01:59:21.202][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-02-02 01:59:21.205][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:21.206][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-02-02 01:59:21.209][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-02-02 01:59:21.211][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-02-02 01:59:21.213][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-02-02 01:59:21.215][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-02-02 01:59:21.236][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-02-02 01:59:21.237][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-02-02 01:59:21.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:21.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:21.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:21.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:21.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:21.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:21.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-02-02 01:59:21.258][ef$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.261][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.262][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.274][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.275][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.277][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.278][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.280][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.289][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.291][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.292][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.294][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.296][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.305][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.308][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.310][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.321][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.323][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.324][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.333][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.349][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.351][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.353][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.362][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.364][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.365][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.367][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.369][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.378][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.380][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.381][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.383][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.394][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.396][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.397][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.398][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.400][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.410][ef$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:21.411][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:21.413][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.414][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:21.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:21.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:21.427][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:21.429][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.430][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:21.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:21.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.441][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.443][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.444][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.446][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.457][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.459][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.460][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.461][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.473][ef$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.474][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.476][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.477][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.497][ef$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.499][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.501][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.502][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.504][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.514][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:21.515][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:21.517][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.518][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.520][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:21.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:21.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.530][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:21.532][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.533][ef$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.534][ef$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.536][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-02-02 01:59:21.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.564][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.569][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.575][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-02-02 01:59:21.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.581][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.586][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.592][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-02-02 01:59:21.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-02-02 01:59:21.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-02-02 01:59:21.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.637][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.652][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-02-02 01:59:21.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.664][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.670][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-02-02 01:59:21.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.675][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.686][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-02-02 01:59:21.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.692][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.698][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.709][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:21.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:21.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.715][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:21.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:21.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-02-02 01:59:21.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-02-02 01:59:21.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:21.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:21.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:21.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-02-02 01:59:21.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-02-02 01:59:21.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.760][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.766][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.771][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-02-02 01:59:21.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-02-02 01:59:21.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.804][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.820][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.826][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.832][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-02-02 01:59:21.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.837][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:21.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:21.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.843][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:21.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:21.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-02-02 01:59:21.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-02-02 01:59:21.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.854][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:21.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.871][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.876][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-02-02 01:59:21.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-02-02 01:59:21.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.886][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.909][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-02-02 01:59:21.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-02-02 01:59:21.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.919][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.924][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.936][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-02-02 01:59:21.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-02-02 01:59:21.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-02-02 01:59:21.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:21.989][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-02-02 01:59:21.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:21.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:21.996][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:21.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:21.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.001][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.007][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:22.013][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-02 01:59:22.014][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:22.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:22.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:22.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:22.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:22.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:22.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:22.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:22.046][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-02 01:59:22.047][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-02-02 01:59:22.049][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-02-02 01:59:22.051][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:22.053][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:22.055][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:22.057][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:22.058][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:22.064][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:22.066][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:22.067][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:22.068][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:22.070][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-02 01:59:22.071][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-02 01:59:22.074][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.079][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.085][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.090][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.105][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.112][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.117][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:22.123][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-02 01:59:22.124][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-02 01:59:22.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:22.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:22.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:22.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:22.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:22.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:22.140][FUN] Functions in observer BiodbConfig: [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[2023-02-02 01:59:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.153][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.164][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.176][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:22.182][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-02-02 01:59:22.183][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-02 01:59:22.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:22.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:22.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:22.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:22.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:22.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:22.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-02-02 01:59:22.215][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-02-02 01:59:22.217][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-02-02 01:59:22.218][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-02-02 01:59:22.221][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:22.223][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:22.225][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-02-02 01:59:22.227][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-02-02 01:59:22.229][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-02-02 01:59:22.235][private$doListFiles] List files in /home/biocbuild/.cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-02-02 01:59:22.236][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-02-02 01:59:22.238][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-02-02 01:59:22.239][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-02-02 01:59:22.240][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-02-02 01:59:22.242][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-02-02 01:59:22.244][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.259][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.271][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.276][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.282][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.288][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:22.293][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-02-02 01:59:22.295][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-02-02 01:59:22.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:22.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:22.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:22.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:22.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:22.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:22.311][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.TRACE[2023-02-02 01:59:22.312][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.318][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.324][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.329][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.335][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.341][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-02-02 01:59:22.346][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-02-02 01:59:22.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-02-02 01:59:22.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-02-02 01:59:22.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-02-02 01:59:22.352][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-02-02 01:59:22.353][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-02-02 01:59:22.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-02-02 01:59:22.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:22.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:22.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:22.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:22.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:22.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-02-02 01:59:22.374][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-02-02 01:59:22.375][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-02-02 01:59:22.377][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-02-02 01:59:22.378][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-02-02 01:59:22.379][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-02-02 01:59:22.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-02-02 01:59:22.382][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-02-02 01:59:22.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-02-02 01:59:22.384][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-02-02 01:59:22.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 186 ]
>
> proc.time()
user system elapsed
12.860 0.388 19.456
biodbHmdb.Rcheck/biodbHmdb-Ex.timings
| name | user | system | elapsed | |
| HmdbMetabolitesConn | 2.101 | 0.129 | 2.350 | |
| HmdbMetabolitesEntry | 0.429 | 0.004 | 0.499 | |